RiceWiki - User contributions [en]

Os01g0173100

2014-06-08T02:58:19Z

Hermione: /* Function */

Please input one-sentence summary here.

==Annotated Information==
===Function===
[[File:hj.jpg|right|thumb|350px|Fig.1Transcript analyses of OsAlba1 in response to different stresses and tissue-specific expression. ]]
[[File:Exkl.jpg|right|thumb|350px|Fig.2 Subcellular localization of OsAlba1-GFP fusion protein.]]
[[File:Examplo.jpg|right|thumb|350px|Fig.3 Phylogenetic relationship of OsAlba1 with its orthologs was inferred using the neighbor-joining method.]]
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.(Fig1)

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.(Fig2)

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.(Fig3)

==Labs working on this gene==
1.National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

2.Department of Agricultural Chemistry, National Taiwan University, 106 Taiwan

3.Centre of Excellence for Integrated Approaches in Chemistry and Biology of Proteins (CipKeBiP), Ljubljana, Slovenia

4.Institute of Cell Biology, University of Bern, Bern, Switzerland

5.Department of Clinical Research, University of Bern, Bern, Switzerland

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:57:17Z

Hermione: /* Labs working on this gene */

Please input one-sentence summary here.

==Annotated Information==
===Function===
[[File:hj.jpg|right|thumb|350px|Fig.1]]
[[File:Exkl.jpg|right|thumb|350px|Fig.2]]
[[File:Examplo.jpg|right|thumb|350px|Fig.3]]
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.(Fig1)

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.(Fig2)

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.(Fig3)

==Labs working on this gene==
1.National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

2.Department of Agricultural Chemistry, National Taiwan University, 106 Taiwan

3.Centre of Excellence for Integrated Approaches in Chemistry and Biology of Proteins (CipKeBiP), Ljubljana, Slovenia

4.Institute of Cell Biology, University of Bern, Bern, Switzerland

5.Department of Clinical Research, University of Bern, Bern, Switzerland

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:52:52Z

Hermione: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
===Function===
[[File:hj.jpg|right|thumb|350px|Fig.1]]
[[File:Exkl.jpg|right|thumb|350px|Fig.2]]
[[File:Examplo.jpg|right|thumb|350px|Fig.3]]
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.(Fig1)

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.(Fig2)

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.(Fig3)

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:52:19Z

Hermione: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
===Function===
[[File:hj.jpg|right|thumb|350px|Fig.1]]
[[File:Exkl.jpg|right|thumb|350px|Fig.2]]
[[File:Examplo.jpg|right|thumb|350px|Fig.3]]
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.(Fig1)

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.(Fig2)

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:50:22Z

Hermione: /* Function */

Please input one-sentence summary here.

==Annotated Information==
===Function===
[[File:hj.jpg|right|thumb|350px|Fig.1]]
[[File:Exkl.jpg|right|thumb|350px|Fig.2]]
[[File:Examplo.jpg|right|thumb|350px|Fig.3]]
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

File:Examplo.jpg

2014-06-08T02:49:04Z

Hermione:

Os01g0173100

2014-06-08T02:48:45Z

Hermione: /* Function */

Please input one-sentence summary here.

==Annotated Information==
===Function===
[[File:hj.jpg]]
[[File:Exkl.jpg]]
[[File:Examplo.jpg]]
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

File:Exkl.jpg

2014-06-08T02:48:12Z

Hermione:

Os01g0173100

2014-06-08T02:47:50Z

Hermione: /* Function */

Please input one-sentence summary here.

==Annotated Information==
===Function===
[[File:hj.jpg]]
[[File:Exkl.jpg]]
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

File:Hj.jpg

2014-06-08T02:46:58Z

Hermione:

Os01g0173100

2014-06-08T02:41:53Z

Hermione: /* Function */

Please input one-sentence summary here.

==Annotated Information==
===Function===
[[File:hj.jpg]]
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:17:32Z

Hermione: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

2.Aravind, L., Iyer, L.M., Anantharaman, V., The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism. Genome Biol. 4, R64.2003.

3.Goyal, M., Alam, A., Iqbal, M.S., Dey, S., Bindu, S., Pal, C., Banerjee, A., Chakrabarti, S., Bandyopadhyay, U., 2012. Identification and molecular characterization of an Alba-family protein from human malaria parasite Plasmodium falciparum. Nucleic Acids Res. 40, 1174–1190.

4.Ingram, J., Bartels, D., 1996. The molecular basis of dehydration tolerance in plants. Annu. Rev. Plant Physiol. Plant Mol. Biol. 47, 377–403.

5.Raj, A., Tripathi, M.P., 2000. Varietal variations in flag leaf area and yield in deep water rice. Indian J. Plant Physiol. 5, 293–295.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:09:26Z

Hermione: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
1.Jitendra Kumar Verma, Saurabh Gayali , Suchismita Dass , Amit Kumar , Shaista Parveen , Subhra Chakraborty, Niranjan Chakraborty, OsAlba1, a dehydration-responsive nuclear protein of rice (Oryza sativa L. ssp. indica), participates in stress adaptation, Phytochemistry 100 (2014) 16–25

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:05:45Z

Hermione: /* Labs working on this gene */

Please input one-sentence summary here.

==Annotated Information==
===Function===
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:04:56Z

Hermione: /* Function */

Please input one-sentence summary here.

==Annotated Information==
===Function===
Water-deficit conditions triggered OsAlba1 expression suggesting its function in dehydration stress, possibly through an ABA-dependent pathway. Functional complementation of the yeast mutant DPop6 established that OsAlba1 also functions in oxidative stress tolerance. The preferential expression of OsAlba1 in the flag leaves implies its role in grain filling. Our findings suggest that the Alba components such as OsAlba1, especially from a plant where there is no evidence for a major chromosomal role, might play important function in stress adaptation.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
Please input related labs here.

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T02:00:13Z

Hermione: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
===Function===
Please input function information here.

===Expression===
'''Stress-responsive and tissue-specific expression of OsAlba1'''

In order to investigate transcriptional regulation of OsAlba1 under dehydration, we carried out Northern blot analysis. The OsAlba1 transcripts were induced during 48–96 h, but dropped to steady state level at 120 h of dehydration . The discrepancy between the transcript abundance and the protein profile is not unprecedented and suggests posttranscriptional and/or posttranslational regulation of OsAlba1 during stress. Quantitative determination of mRNA expression do not always reliably predict corresponding protein levels, and the general correlation between mRNA levels and protein abundance is often poor. This might be explained by translational regulation and/or differences in protein in vivo half-lives, indicating the regulatory complexity of mRNA translation and protein stability.

Because dehydration-responsive pathway often overlaps with that of ABA, and dehydration represents a common stress challenge to plant cells under high salinity and cold conditions, the expression of OsAlba1 transcripts was investigated triggered by each of these conditions. A persistent induction of OsAlba1 was observed under cold, with maximum transcript accumulation at 12 h of stimulation. Even at 24 h of cold treatment, the mRNA level remained elevated when compared with the unstressed condition . Treatment with 250 mM NaCl resulted in somewhat more transient mRNA elevation that declined within 24 h. Next, we examined whether OsAlba1 transcription was affected by ABA, and it appeared to be induced until 12 h of treatment. These results altogether suggest that OsAlba1 may actively participate in osmotic and
hyper-osmotic stress, and this participation may, in part, depend on ABA.

To determine the organ-specific expression of OsAlba1, we compared transcript abundance in roots, stems, leaves, flag leaves, sheaths and panicles of rice seedlings. The transcripts were abundantly and constantly transcribed in flag leaves . The expression in other major vegetative organs was substantially low. Next, we examined the protein abundance in all these tissues by immunoblot analysis. The results showed the presence of OsAlba1 in leaves and flag leaves, corroborating the mRNA profile. The predominant expression of OsAlba1 in the flag leaves seems to support the growing panicles which might be crucial during grain filling. The rice flag leaves are essential in providing photosynthates and has been reported to play an important role in grain yield and in enhancing productivity. These results may have important implications, since such organspecific gene expression is closely related to harvest yield, and perhaps crucial for driving agronomic trait/s.

'''Subcellular localization of OsAlba1'''

To verify the in silico predicted dual localization of OsAlba1, its subcellular localization was further investigated by transient expression assay using EGFP-containing vector system. The GFP expression showed accumulation of fusion protein in the nucleus, and sparsely in the cytoplasm. An increasing number of proteins, with similar and/ or distinct functions, have been reported to reside in multiple compartments. While the Alba proteins are nuclear resident and reported to play a role in tRNA processing in yeast and human, it is localized to the cytoplasm of Trupanosoma brucei in normal culture conditions but co-localizes with a subset of poly(A)-RNA in stress granules. In Plasmodium falciparum, the ring stages showed localization of Alba proteins to perinuclear foci, while in mature forms, it expanded to the cytoplasm . Thus, our results showing dual localization of Alba protein in plant is in agreement with observations made earlier.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
Please input related labs here.

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os01g0173100

2014-06-08T01:57:00Z

Hermione: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
===Function===
Please input function information here.

===Expression===
Please input expression information here.

===Evolution===
To understand the evolutionary relationships within the Alba protein superfamily, a phylogenetic tree was constructed. The unrooted phylogram revealed presence of two separate lineages, the first group consisting of animal Alba proteins, exemplified by the human RNase/MRP subunits Rpp20/Pop7, and the second containing archaeal and plant Alba proteins. OsAlba1 (A2WL83, O. sativa ssp. indica) is identical to Q94E63 (O. sativa ssp. japonica) and I1NKP6 (O. glaberrima). It clustered together with monocot (Oryza brachyantha, Zea mays, and Hordeum vulgare) Alba proteins, suggesting a closer proximity to these as compared to dicot Alba proteins.

Multiple sequence alignment (MSA) of OsAlba1 with other known Alba sequences from diverse sources including Archaea, Arabidopsis, yeast, human, Plasmodium and Trypanosoma revealed a high degree of conservation of amino acid in the regions of 59–72 and 101–122 in MSA, corresponding to 46–59 and 71–92, respectively, in OsAlba1. MSA showed presence of a conserved glycine residue at position 77 within Alba domain. Ten homologs of Alba protein have thus far been reported in UniProt database from indica rice, nine of which correspond to specific known genes with known locus ID on chromosomes. OsAlba1 is located on chromosome 1, albeit being a complete sequence of 152 aa in contrast to A2WL83 with 124 aa (UniProtKB/TrEMBL). The accession number of chromosome 1 of Oryza sativa ssp indica is GI 57015219 in NCBI, while that of japonica is GI 57015276. Available sequence of OsAlba1 in indica (position 4200197–4201583) corresponds to position 3805619–3807005 of japonica, indicating its different position on chromosome 1. The Alba sequences were retrieved from UniProt and a phylogenetic analysis of the Alba proteins from O. sativa ssp. indica was carried out. The phylogram appeared to be divided into two groups based on the percentage of protein sequence covered by Alba domain. The Alba domain for Group I had sequence coverage of less than 30%, while Group II comprised those with higher sequence coverage, when compared with the complete protein sequence .MSA of the phylogenetic tree is shown in Supplementary. All the ten sequences, harboring only a single domain i.e., Alba, are uncharacterized.

==Labs working on this gene==
Please input related labs here.

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0173100|
Description = Alba, DNA/RNA-binding protein family protein|
Version = NM_001048692.1 GI:115434797 GeneID:4327120|
Length = 1684 bp|
Definition = Oryza sativa Japonica Group Os01g0173100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 1|Chromosome 1]]|
AP = Chromosome 1:3741778..3743461|
CDS = 3741949..3742044,3742170..3742234,3742377..3742439,3743057..3743105,3743202..3743387 |
GCID = <gbrowseImage1>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:3741778..3743461
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatggccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagaagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctga</cdnaseq>|
AA = <aaseq>MAVEEITEGVRNLAVEGEPAAAAAAAGGGGEGAQRRAAGSSSNR IQVSNTKKPLFFYVNLAKRYMQQHGDVELSALGMAIATVVTVAEILKNNGFAVEKKIR TSTVEINDESRVRPLQKAKIEIVLEKSEKFDELMAAAAEEREAAEAEEQA</aaseq>|
DNA = <dnaseqindica>1418..1513#1228..1292#1023..1085#357..405#75..260#gcacaacccaccaccaccaccaccaccgatctgcggagagcgagctaccaccaccgagcggcgtagcttgagcgatggcggtggaggagatcaccgagggggtgaggaacctggccgtggagggggagcccgcggcggcggcggcggcggcgggaggtggtggtgagggggcgcagaggagggcggccgggagcagcagcaaccgcatccaggtgtccaacaccaagaagccactcttcttctatgtcaacctcgccaaggtttgtcactctacccgcctcgcctcctctccgtgccctagccgcgagcagcagcggtttttgttgactgattggattggtttcgtttttatgcagaggtacatgcagcagcacggcgatgtcgagctctccgcgctcgggatgggtgcgtctcgctctcttctccctgttcatccctggtctcgatttggcgttaattcggggggttttagggtaataggagtgactcttgttgagttgattcgacctagaagttattaggttgtgggagaatgcgaacgatgcaagaagttactgtttgcatgtgcaattgctctgttgtttcatgattgacttctggattcccaatctatttttatcaaggtggagcatttttctgtttcgcgtttgtgtgctaggtaatcttagtattgtgttctaggatatgccattttgcgaagcagtgtatagttcaatagttggtcttgaagacttaaacgggtggtctttgtttcgtactcgcattgatatgtacataaccactcataaaatgagtcatgacaccctttcaccactcttcattacctttgcttttggtcaagtaaaactatttactgttcttaaaaaaaaaagaagctgtttataaatgtttaactcttagatgagtgctgactgtcagcccatttggttggtcggtgtagttcgatatttcctttcttcaagatgtggttttatctctactgttgaaggctgtacaaaccatattgtttgatttgtttgcagccattgcaacagttgtaactgttgcggagattcttaagaataacgggtttgctgttgaaaagagtaagaaattctttccttgcaggattgtactgcttgttttgtctcattatctgttttaacattactgttgtgggcatgcagtaatccacaatattcattgttctctactctgaattttccattttcaccttcgcttgtgtagagattagaacatctacggtggaaataaacgatgaatcgagagttcgcccgctccaaaaggctaaggtcaggctttagttgccaaagccacttatttctctcttgttaaaaaaaaaaagcctgttcttaacatgagctttctttctttctttttctaaacctgaactgattgagagctttgtttcctacagattgagatagtgttagaaaagagcgagaaatttgatgagctgatggctgccgcagcggaagagagggaagctgcggaagctgaggagcaggcctgataaggactaggagcgatgacctttgttgtgtgctttgttcctgttgtttaatactgcgtgctttagagatggcatgccttcttgtttaagttgtgtttttcttttatggcagtgtgtgtaaactcagtgactgatgataatctgtttgcaattgagttgagacagcttctc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001048692.1 RefSeq:Os01g0173100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

Os05g0486100

2014-06-06T11:01:36Z

Hermione: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
[[File:x.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.
This study demonstrated a common regulatory pathway of root system development in higher plants, which might be initiated by external stimuli via upstream receptor-like kinases and downstream carriers for polar auxin transport.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Data revealed that OsRPK1, which was designated Osi000900.2 and belongs to the LRR-VIII subfamily of RLK/Pelle in rice, had no close homologues in any other plant genome . For example, OsRPK1 shows 68 and 58% identity with EES19713 from Sorghum bicolor and CCB55930 proteins from Vitis vinifera, respectively, and 56% identity with XP_003547844 from Glycine max. In the rice genome, Os03g0329700 and Os01g0816600 proteins share 58 and 56% identity with OsRPK1, respectively. In addition, the results demonstrated that OsRPK1 is a novel leucine-rich-repeat receptor-like kinase (LRRRLK), and no function had been assigned. OsRPK1 contains six periplasmic LRR motifs, one transmembrane domain, and one conserved cytoplasmic kinase domain . The kinase domain contained all 12 conserved sub-domains of the eukaryotic protein kinase, HRDIKSTN in the VIb sub-domain, and GTLGYLDPEY in the VIII sub-domain, indicating that OsRPK1 is a serine/threonine kinase

Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg|350px|thumb|Fig.5 Phylogenetic relationship among OsRPK1 homolog ]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

<references>
<ref name="ref1">XXX</ref>
<ref name="ref2">XXX</ref>
<ref name="ref3">XXX</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-06-06T10:51:11Z

Hermione: /* Function */

Please input one-sentence summary here.

==Annotated Information==
[[File:x.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.
This study demonstrated a common regulatory pathway of root system development in higher plants, which might be initiated by external stimuli via upstream receptor-like kinases and downstream carriers for polar auxin transport.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg|350px|thumb|Fig.5 Phylogenetic relationship among OsRPK1 homolog ]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

<references>
<ref name="ref1">XXX</ref>
<ref name="ref2">XXX</ref>
<ref name="ref3">XXX</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-06-06T10:47:45Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:x.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg|350px|thumb|Fig.5 Phylogenetic relationship among OsRPK1 homolog ]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

<references>
<ref name="ref1">XXX</ref>
<ref name="ref2">XXX</ref>
<ref name="ref3">XXX</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

File:X.jpg

2014-06-06T10:45:44Z

Hermione:

Os05g0486100

2014-06-06T10:44:48Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:x.jpg]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg|350px|thumb|Fig.5 Phylogenetic relationship among OsRPK1 homolog ]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

<references>
<ref name="ref1">XXX</ref>
<ref name="ref2">XXX</ref>
<ref name="ref3">XXX</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-06-06T10:43:10Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg|350px|thumb|Fig.5 Phylogenetic relationship among OsRPK1 homolog ]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

<references>
<ref name="ref1">XXX</ref>
<ref name="ref2">XXX</ref>
<ref name="ref3">XXX</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-06-06T10:41:41Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg|350px|thumb|Fig.5 Phylogenetic relationship among OsRPK1 homolog ]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

<references>
<ref name="ref1">XXX</ref>
<ref name="ref2">XXX</ref>
<ref name="ref3">XXX</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:42:29Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg|350px|thumb|Fig.5 Phylogenetic relationship among OsRPK1 homolog ]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:41:57Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg|300px|thumb|Fig.5 Phylogenetic relationship among OsRPK1 homolog ]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

File:45.jpg

2014-05-25T02:39:58Z

Hermione:

Os05g0486100

2014-05-25T02:39:34Z

Hermione: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />
[[File:45.jpg]]

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:35:39Z

Hermione: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />(Fig.4)
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:34:36Z

Hermione: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />
[[File:34e.jpg|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

File:34e.jpg

2014-05-25T02:33:44Z

Hermione:

Os05g0486100

2014-05-25T02:33:27Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />
[[File:34e.jpg]]
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:31:52Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />
[[File:45.jpg]]
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:31:12Z

Hermione: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:30:40Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
[[File:4.jpg]]
The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:28:00Z

Hermione: /* Wild Type VS. Mutant */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines. At the ripening stage, there were significant differences between WT and the transgenic lines in the total and effective tiller number per plant. ComparedwithWT, over-expressing lines showed a 25% decrease in the effective tiller number, leading to a 27% reduction in grain yield per plant(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />[[File:333.jpg|left|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]] (Fig.4)

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:11:51Z

Hermione: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.

The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />[[File:333.jpg|left|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]] (Fig.4)

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:11:20Z

Hermione: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
The expression of OsRPK1 in different tissues was analyzed by realtime quantitative PCR. The results showed that OsRPK1 had a higher expression in root tips and leaf blades.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />[[File:333.jpg|left|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]] (Fig.4)

===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:06:51Z

Hermione: /* Labs working on this gene */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />[[File:333.jpg|left|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]] (Fig.4)
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
1.Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

2.Japan Biological Information Research Center

3.EMBL Outstation–European Bioinformatics Institute, United Kingdom

4.Department of Biology, McGill University, Canada

5.Department of Genetics, The University of Georgia, USA

6.Center for Information Biology and DNA Data Bank of Japan

7.Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:02:24Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />[[File:333.jpg|left|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]] (Fig.4)
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:01:40Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />[[File:333.jpg|left|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]] (Fig.4)
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T02:00:54Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===

This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />[[File:333.jpg|left|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]] (Fig.4)
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T01:59:44Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===
[[File:333.jpg|left|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]
This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" /> (Fig.3)
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T01:58:17Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===
This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" /> [[File:333.jpg|left|thumb|300px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T01:57:08Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===
This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />
[[File:333.jpg|left|thumb|350px|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T01:55:51Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===
This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />
[[File:333.jpg|left|thumb|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T01:53:58Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===
This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />
[[File:333.jpg|thumb|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T01:52:30Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===
This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />
[[File:333.jpg|Fig.4 Top:Tissue specific expression of OsRPK1 in wild-type rice plants Bottom: Relative expression levels of OsRPK1 in the roots of 2-week old wild type seedlings with reagents treatment for 0 h and 12 h]]
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

Os05g0486100

2014-05-25T01:45:28Z

Hermione: /* Annotated Information */

Please input one-sentence summary here.

==Annotated Information==
[[File:F1.jpg|right|thumb|350px|Fig.1 Top:1-week-old seedlings Bottom: 4-week-old seedlings ]] [[File:F2.jpg|right|thumb|300px|Fig.2 Top: Roots of 10-day-old plants Bottom: Roots of 4-week-old plants ]] [[File:F3.jpg|right|thumb|300px|Fig.3 Top: Histology of root apex visualized on optical longitudinal sections of living embryonic primary roots Bottom: Longitudinal sections of primary root ]]

===Function===
This gene encodes a Ca2+-independent Ser/Thr kinase which is induced by auxin and abscisic acid (ABA). The novel leucine-rich-repeat receptor-like kinase affects the root system architecture by negatively regulating polar auxin transport in rice.<ref name="ref1" /> Knockdown of OsRPK1 promoted the growth of transgenic rice plants, and increased plant height and tiller numbers. In contrast, over-expressing plants showed undeveloped adventitious roots, lateral roots, and a reduced root apicalmeristem. OsRPK1 over-expression also inhibited the expression ofmost auxin efflux carrier OsPIN genes, which was accompanied by changes in PAT and endogenous free IAA distribution in the leaves and roots.

===Wild Type VS. Mutant===

Three under-expressing lines:A5, A7, A9

Three over-expressing lines: O1, O7, O8

One week after germination, the growth of the primary embryonic root was delayed in the over-expressing lines, whereas the under-expressing lines had more adventitious root production compared with WT. At the seedling stage, over-expressing lines exhibited significant shorter shoot height and less fresh weight compared with the WT or under-expressing lines. From the seedling to the tillering stage, under-expressing lines had an increased tiller number compared with the WT and over-expressing lines.(Fig.1)

Over-expressing lines had a smaller root system and fewer adventitious roots . Lateral root formation was severely defective in over-expressing lines. (Fig.2)

Under-expressing lines had well-developed meristems and elongation zones compared with WT, which were slightly defective
in over-expressing plants.(Fig.3)

===Expression===
This gene is predominantly expressed in root tips, leaf blades, and undifferentiated suspension cells, and is markedly induced by treatment with auxin or ABA.
Compared with the roots, the expression of OsRPK1 was reduced 5-fold in the stem and 2-fold in the leaf sheath. Real-time PCR analyses showed that the expression of OsRPK1 was induced mainly by exogenous auxin (2,4-D and IAA) and ABA within 12 h of treatment.<ref name="ref1" />
[[File:333.jpg]]
===Evolution===
Receptor-like kinases (RLKs) are a family of transmembrane proteins with versatile N-terminal extracellular domains and C-terminal intracellular kinases.Analysis of four fungal, six metazoan, and two Plasmodium sp. genomes indicates that the family was represented in all but fungal genomes, indicating an ancient origin for the family with a more recent expansion only in the plant lineages.

None of the four fungal genomes examined contained recognizable RLK/Pelle family members. However, the presence of family members in Plasmodium sp. and animal genomes suggests an origin for the RLK/Pelle family in a common ancestor of all genomes examined. The consistently low gene numbers in genomes other than Arabidopsis suggest that a dramatic expansion occurred in the plant lineage. On the other hand, the absence of family members in the fungal genomes examined indicates the RLK/Pelle family may be lost in fungal lineages after fungus-metazoan split.<ref name="ref2" /> <ref name="ref3" />

==Labs working on this gene==
Dept. of Biochemistry & Molecular Biology, College of Life Science, Nanjing Agricultural University, Nanjing 210095, China

Japan Biological Information Research Center

EMBL Outstation–European Bioinformatics Institute, United Kingdom

Department of Biology, McGill University, Canada

Department of Genetics, The University of Georgia, USA

Center for Information Biology and DNA Data Bank of Japan

Graduate School of Information Science and Technology, Hokkaido University, Japan.

==References==
1.Yu Zou, Xiaoyu Liu, QingWang, Yu Chen, Cheng Liu, Yang Qiu,Wei Zhang, OsRPK1, a novel leucine-rich repeat receptor-like kinase, negatively regulates polar auxin transport and root development in rice, Biochimica et Biophysica Acta 1840 (2014) 1676–1685

2.Shin-Han Shiu and Anthony B. Bleecker, Expansion of the Receptor-Like Kinase/Pelle Gene Family and Receptor-Like Proteins in Arabidopsis, Plant Physiol. 132 (2003) 530–543.

3.S.H. Shiu, A.B. Bleecker, Plant receptor-like kinase gene family: diversity, function, and signaling, Sci. STKE 2001 (2001) RE22.

4.Cui-Cui Shi1, Cui-Cui Feng1, Mei-Mei Yang, Overexpression of the receptor-like protein kinase genes AtRPK1 andOsRPK1 reduces the salt tolerance of Arabidopsis thaliana, Plant Science 217– 218 (2014) 63– 70

5.Takeshi Itoh, Tsuyoshi Tanaka, Roberto A. Barrero, Curated genome annotation of Oryza sativa ssp.japonica and comparative genome analysis with Arabidopsis thaliana, Genome Research 17:175–183 2007

6.Tsuyoshi Tanaka1, Baltazar A. Antonio1, Shoshi Kikuchi, The Rice Annotation Project Database (RAP-DB): 2008 update, Nucleic Acids Research, D1028–D1033 ( 2008)

==Structured Information==
{{JaponicaGene|
GeneName = Os05g0486100|
Description = Protein kinase-like domain containing protein|
Version = NM_001062412.1 GI:115464554 GeneID:4339142|
Length = 5961 bp|
Definition = Oryza sativa Japonica Group Os05g0486100, complete gene.|
Source = Oryza sativa Japonica Group

ORGANISM Oryza sativa Japonica Group
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP
clade; Ehrhartoideae; Oryzeae; Oryza.
|
Chromosome = [[:category:Japonica Chromosome 5|Chromosome 5]]|
AP = Chromosome 5:23946647..23952607|
CDS = 23946795..23947319,23947773..23948005,23948130..23948489,23948666..23948824,23949107..23949585 ,23949694..23949825,23949911..23949982,23950073..23950147,23950232..23950300 ,23950375..23950446,23950546..23950617,23950698..23950769,23950876..23951037 ,23951136..23951207,23951305..23951379,23951965..23952036,23952131..23952251 ,23952401..23952488|
GCID = <gbrowseImage1>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008398:23946647..23952607
source=RiceChromosome05
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacgctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacattttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagttgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttgcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactgggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtag</cdnaseq>|
AA = <aaseq>MEPRVLMALALVVVAAGVPAVLCQTNAQDAAALEGLKSQWTNYP LSWNSGDPCGGGWDGIMCTNGRVTTLRLSSVSLQGTLSSSIGQLGQLTYLDLSFNINL GGPLPAEIGNLGELTTLILAGCSFTGNIPIAIGNLRKLGFLALNSNKFSGGIPSSIGV LTNLLWLDLADNQLTGSVPISTSTSPGLDQLVKTQHFHFNKNQLTGTLTGLFNSNMTL IHILFDSNKFSGSIPAEVGTVSTLEVLRLDRNGFTGAIPATIGSLVKLNELNLANNKL TGSVPDLSNMTNLNVVDLSNNTFDPSVAPSWFTSLTSLASVSIVSGSLSGQVPKGLFT LPTLQQVVLSNNQFNGTLEITGNISSSLQTVNLMDNRIVSTDTASYKKTLLLAGNPFC AEQDPNNRAFCSRQLQNASPYSTSMEKCGSAQCSDGQNVNPASCGCAFSYNGKMVFRA PFFVDLVSSTPFQLLESTMAAKLNLLPGSVALSDIHFNSDNYLQVQVKLFPTSGVTFN LSELTRIGSSLSNQIYKPPANFGPYFFIADPYAPLAVALGGKKSKMSTGAIAGIAVAG GVLVIALIFMSLFALRQKRRAKELKERADPFASWAAGQKDSGGAPQLKGARFFSFDEL KICTNNFSDNHEIGSGGYGKVYRGILGDGTRVAIKRADRNSMQGAVEFKNEIELLSRV HHRNLVSLIGFCYEQGEQMLVYEYISNGTLRENLTGSGMYLDWKKRLRIALGSARGLA YLHELADPPIIHRDIKSTNILLDNNLKAKVADFGLSKLVADTEKGHVSTQVKGTLGYL DPEYYMTQQLSEKSDVYSFGVVMLELVSGRQPIEKGRYVVREVRLAIDPADHDHHYGL RGIVDPAIRDAARTPVFRRFVQLAMRCVDESAAARPAMGAVVKEIEAMLQNEPDDAGA GEGDSSADPSANEFDRHRGGGGPPAHPYSDVEISRGSYAGDGASDYMPYFEVKPK</aaseq>|
DNA = <dnaseqindica>5289..5813#4603..4835#4119..4478#3784..3942#3023..3501#2783..2914#2626..2697#2461..2535#2308..2376#2162..2233#1991..2062#1839..1910#1571..1732#1401..1472#1229..1303#572..643#357..477#120..207#gcgcggactcttctcctcttcttcctccacctcctcctccacgatctccggtcaagcagagcacaagcgtgtgctagctctcccggtggcttgcctcgccggcgacggcgcggcgcaggatggagccgcgggtgttgatggctcttgcgctggtggtggtggcggcgggcgtgccggcggtgttgtgccagaccaacgcccaggacggtgagtgctcttgcctcgccgccggcgatcacctccgtttcttccatagatgattctaaagtcaggcaggatcttcttgcccggagaagaatcgcttggtttttgttgctggtgttgatgatcttcttcttgggcatgcatgcgtgcagctgcggcgctcgaggggctgaagagccaatggacgaactacccgttgagctggaactccggcgacccctgcggcggcggatgggacggcatcatgtgcaccaacggcagggtgacgacgctgtaagttacagccatctccttctcctcctaccaccaatatcatgtgatgggccttcctctgaaatcgtgccatggatgtctctggtttttgcaggaggctgtcaagcgtcagcctgcagggaacactgagcagcagcatcggccagctcggccagctcacgtacctgtaagcaccttcttctatcatcagttcatcacccagcttagcaaaagttcaaaacagcatgattttgcaggctatgaacttgggattttcgaaattttgttcatgcttctgtagcagttcagattgtgaattcaggcaatcaggctaggaacttctgattgaaccagtcaaggggcagattgtcagaacagtttgcttctagtttatgaactctgcttttttttttcttgaggcttagttcagctgaccagttcatgtttaccaatcttaagctttgactatttcggcaatgtgacatggattaggttcatttcttaccaaatgaaagaaacaaagatatgatgccaagttacaatagtaaatagatctggatgaaatatctgaagctttgactattttcgcaatgtgacatggattaggctcatttcttaccaaaagaaagaaacaagatactacacttgaagttaaattatcaatagcaaacgtacctggatgaaatgatccgtgacaaagttctggagtacaactaatttgtctaagaagaaatagtctagtagtagtagctgataacagaaacacttgcagggatctttccttcaacatcaatctcggtggtccgctgccagctgagattgggaaccttggggagcttacgacactgtatgcgccgcactgcccattgttgtcaacactactttttccaatcagaaataccaaactttcttactgatgtgcacaaatgctgtgtaattgtcaggatcttagctggttgcagcttcactggaaacattccaatagcaataggcaacctgcggaaacttgggttcttgtaagtggatatacctggtccacagtttcagatgataaaccctttttttcttttcttttgagtggattgacataatgaattcgtgccattctctatagggccttgaattcaaacaagtttagtggtggaataccgtcttcgattggcgtactcacaaacctcttatggctagacctggctgataatcaactcactggatctgtccccatctcaacatcaacatcaccaggcctggaccaacttgtcaaaacgcagcacttgtaagtaattttaatcttactttatggtattatcaattgagaaatatcagaatatgtaagtacttacaattgattgttttgctccaaacttcaaattgatgaacagccatttcaacaagaaccagttaactggaacgcttactggacttttcaactccaatatgactctcatacacatgtaagggatcgacaaattttcatgtctaatatgaataccgaatagatatatcttgctaacatctctccctatctcgtcagtttgtttgatagcaacaaattctcaggctcaatcccagctgaggttgggactgttagtacactcgaagttctgtaagtatcttgaaagttcacataggtggaactcatccttttattttctccaaaaaaaaaaatggtcatatctttgacttgcttttgtatctttgacagccgattggataggaatggttttacgggagcaatacctgctacaattggcagtttggtcaaactgaatgagctgtaagtgacatctgatcttaaaggaagagttatgacacttgaggcacctctcttgaaaatgttatcttctgcaggaacttagcaaacaacaagctaactggatcagtgccagatctcagcaacatgaccaacttgaatgttgtgtaagaaactaaccacccccatgcctcatcatccaatcatataatttgtctgcataactaaagattccactcttgaattgccagggatttgagcaacaacacatttgatccttcagtggcccccagctggttcacatctttaacatctcttgcttctgtgtgagttatccaaaacttttggaattttaaattttgtgtcgtcttgtgatgacaatttcatactcatctctatatgttttgatcactcagttcaatagtttctggaagtctttctggccaggtcccaaaggggctcttcacattgcccacactgcagcaagtgtaattttctggtaacttacaactcaacatataagctttaaaaaaaagtgtcttatctctgcctattttgtggccaatcggacagtgtgctgagcaacaaccaattcaacgggacacttgaaattacaggcaacatcagcagctcactgcagacagtaaatctcatggacaaccgaatagtttctaccgatactgcaagctacaagaaaactctactgtaagaacctgcaaactcaataagaaccaagaacaccatacaatcttcgtcttctctcctacctttcaccaacattgcctcacttctcatgccatatcctgtctgcagcctggcaggtaatccgttttgcgccgagcaagatcccaacaacagagccttctgcagcaggcagctacagaacgcgagcccatacagtaccagtatggaaaaatgcggctcagctcagtgcagtgatggtcagaacgtgaaccctgcaagctgcggctgtgctttctcatacaacggcaagatggttttcagggcacccttcttcgtcgacttggtgagcagtacgccgttccagctgctggagtcgaccatggcggcaaagctgaacctgctccctggctcggtcgctctctcagacatccacttcaacagtgacaactacctccaagttcaagtgaagctgttcccaacatccggggtgaccttcaacctgtcagaattgacaaggattggttcttctctcagtaaccagatttacaaaccaccagcaaattttggaccttatttcttcattgcagacccatatgcccccttggcaggtacttggatttcactgtgtcgagactcccactttatttgcactgaagtagttttagttttccctttgagaatgcagaggtatcaaaattacagcttaggaaataccacatttcgttatctgagggttggtatcttgaaagttttaattttttacttctaaattgcaattaatgagatgctaaaaggactctgctattttatgtcggagagtttagtatttgcacaaaagtactagtatatagtggtgtgaggattgctcactctgattttgtgtgtgccagttgctcttggtggcaaaaaatccaagatgagcacaggtgccatagctggaattgcagtagccggtggggtccttgttatcgccctcattttcatgtcattgtttgctctccgacagaagagaagggctaaggaactcaaggaaagagcagacccttttggtaaggatctaaaagctcataggtatcatgtcactgcaatgccaccaagcaatttgtcagggacacattaacagctacaagcagcagcatcctactgcatgctactactggaataaactgacaagatcaagaagttctgaaacaactgaacctgttttctgatccaaaattttcagcttcatgggctgctggccagaaggacagtggaggggctccacagctgaagggagcaaggttcttctcctttgacgagctcaagatctgcaccaacaacttctctgacaaccacgagatcgggtcaggaggctacgggaaggtgtacagagggattctcggtgacggaacccgtgtcgccatcaagcgtgcagaccgcaactcaatgcagggcgctgtggagttcaagaacgagatcgagctgctgtccagggtgcaccaccgcaacctggtcagcctcattggcttctgctacgagcaaggtgaacagatgctcgtctacgagtacatctccaatggcacactcagagagaacttgacgggtaaatccacatcccataattaacattgccatgaatctgattacacattttatttcgccatttcgtttgcattgctaaaatgattcttttatcaaatgttaactgaaaaggttttgatttgcaggaagtgggatgtacttggactggaagaagaggctgaggatcgcgcttggctcggccagagggcttgcctacctgcacgagctcgctgacccaccgatcatccaccgcgacatcaagtccaccaacatcctcctcgacaacaacctcaaggccaaggttgccgacttcgggctctccaagctcgtggccgacactgagaagggccatgtctccacccaagtcaagggaacactggtaaattcccctcactatccgctcatgccaatctcctgacagaactgaattttgagcctcacttcagtactcactaataaaaatctactaacatcttgagaaccaatcaaaatcgatatgcttaatttgaaatcaaacttgaagtaaatatggtaactaagcatgtacccattgcacttcaccttactaaccacttctcccaatctcaaaataaatcgataaaattcaccttactaaccacttcttccaatctcatgacaaattgataaaattcaccctactaaccacttctgcaagtctcctgacataactgaacttttaggttcgcttcagtaaaattcgacgaacatcttgaggaccaattgaaatagatatgcttaatttgatctgatagtataaagaaaacaatcaagattgaaacaaatggtaataaaatcgatgggatgtggctagggctacctggacccggagtactacatgacgcagcagctgtcggagaagagcgacgtgtacagcttcggggtggtgatgctggagctggtgagcgggaggcagccgatcgagaaggggcggtacgtggtgcgggaggtgcggctggccatcgacccggccgaccacgaccaccactacggcctccgcgggatcgtcgacccggccatccgcgacgccgcgcgcaccccggtgttccggcggttcgtgcagctggcgatgcggtgcgtcgacgagtcggcggcggcgcgcccggccatgggcgccgtggtgaaggagatcgaggccatgctgcagaacgagcccgacgacgccggcgccggggagggggacagctccgccgacccgtccgccaacgagttcgaccgccaccgcggcggtggcggcccgccggcgcacccctacagcgacgtggagatcagccggggatcgtacgccggcgatggcgcgtcggattacatgccctattttgaggtcaagcccaagtagtcatcattagattgtaaattgatgagggtgttgtttgtttcagtttttttttcctttgttctttctccttttcagcttgtgatgaattgtaaattttgtatgtgttgcgagttgcgacagattaatatatactgctacagattctttc</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001062412.1 RefSeq:Os05g0486100]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 5]]
[[Category:Chromosome 5]]

File:333.jpg

2014-05-25T01:44:40Z

Hermione: