RiceWiki - User contributions [en]

Os01g0703600

2014-05-31T15:04:39Z

Chenyaping:

''SPL28'' encodes a clathrin-associated adaptor protein complex 1, medium subunit μ1 (AP1M1) and is responsible for spotted leaf and early senescence in rice.

==Annotated Information==
===Function===
[[File: QiaoFig1.gif|right|thumb|100px|Fig 1. Phenotype of the ''spotted leaf 28'' (''spl28'') mutant <ref name="ref1" />.]] [[File: QiaoFig6.gif|right|thumb|100px|Fig 6. Map-based cloning and identification of ''SPOTTED LEAF 28'' (''SPL28'') <ref name="ref1" />.]]

A novel rice (''Oryza sativa'') spotted leaf mutant (''spl28'') that displays a lesion mimic phenotype in the absence of pathogen attack was isolated through treatment of Hwacheongbyeo (an elite Korean japonica cultivar) with N-methyl-N-nitrosourea (MNU). Early stage development of the ''spl28'' mutant was normal. However, after flowering, spl28 mutants exhibited a significant decrease in chlorophyll content, soluble protein content, and photosystem II efficiency, and high concentrations of reactive oxygen species (ROS), phytoalexin, callose, and autofluorescent phenolic compounds that localized in or around the lesions. The ''spl28'' mutant also exhibited significantly enhanced resistance to rice blast and bacterial blight. Using a map-based cloning approach, ''SPL28'' was determined to encode a clathrin-associated adaptor protein complex 1, medium subunit μ1 (AP1M1), which is involved in the post-Golgi trafficking pathway. A green fluorescent protein (GFP) fusion protein of ''SPL28'' (SPL28::GFP) localized to the Golgi apparatus, and expression of ''SPL28'' complemented the membrane trafficking defect of apm1-1Δ yeast mutants. ''SPL28'' was ubiquitously expressed and contained a highly conserved adaptor complex medium subunit (ACMS) family domain. ''SPL28'' appears to be involved in the regulation of vesicular trafficking, and ''SPL28'' dysfunction causes the formation of hypersensitive response (HR)-like lesions, leading to the initiation of leaf senescence <ref name="ref1" />.

===Expression===
[[File: QiaoFig9.gif|right|thumb|100px|Fig 9. Subcellular localization of SPOTTED LEAF 28 (SPL28)-green fluorescent protein (GFP) fusion protein in onion epidermal cells <ref name="ref1" />.]]

''SPL28'' was expressed in all organs examined. In wild-type plants, ''SPL28'' mRNA was most abundant in the root, leaf and panicle, and was weakly detected in the stem, which indicated that ''SPL28'' is expressed in a tissue-specific manner. ''SPL28'' transcripts exhibited the opposite trend in ''spl28'' mutant plants. The ''spl28'' phenotype was reminiscent of mutants in which defense signaling pathways are constitutively active. The expression of two defense signaling-related genes, PR1 and PR2, was also examined in wild-type and spl28 mutant plants. Based on RT-PCR analysis, PR1 and PR2 in the ''spl28'' mutant were strongly expressed. In addition, ''SAG12'', a gene that encodes a cysteine protease that accumulates during leaf senescence, was strongly expressed in ''spl28'' mutants.

The subcellular localization of ''SPL28'' was in the Golgi apparatus (Fig. 9), which indicated that ''SPL28'' might be involved in the regulation of clathrin-associated adaptor prtein complex 1 (AP-1) membrane-cytoplasm recycling, together with clathrin, during transport vesicle formation and vesicle uncoating in rice.

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
*Department of Plant Science, Research Institute for Agriculture and Life Sciences, and Plant Genomics and Breeding Institute, Seoul National University, Seoul, 151-921, Republic of Korea;
*Crop Environment and Biotechnology Division, National Institute of Crop Science, RDA, Suwon, 441-857, Republic of Korea;
*Key Laboratory of Crop Germplasm Resources and Biotechnology, Ministry of Agriculture, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China

==References==
<references>
<ref name="ref1">Qiao YL, et al. (2010) ''SPL28'' encodes a clathrin‐associated adaptor protein complex 1, medium subunit μ1 (AP1M1) and is responsible for spotted leaf and early senescence in rice (''Oryza sativa''). New phytologist 185: 258-274.</ref>
</references>

==Structured Information==
{{JaponicaGene|
GeneName = Os01g0703600|
Description = Similar to Mu1 adaptin|
Version = NM_001050536.1 GI:115439442 GeneID:4324247|
Length = 3941 bp|
Definition = Oryza sativa Japonica Group Os01g0703600, 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 1:30922266..30926206|
CDS = 30922506..30922634,30922736..30922885,30922973..30923035,30923128..30923304,30923384..30923487 ,30924730..30924837,30924924..30925020,30925128..30925225,30925306..30925447 ,30925529..30925651,30925749..30925847|
GCID = <gbrowseImage1>
name=NC_008394:30922266..30926206
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008394:30922266..30926206
source=RiceChromosome01
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgggcgcggtgtcggcgctgttccttctggacatcaagggccgcgtcctcgtctggcgcgactaccgcggcgacgtctccgccctccaggctgagcgcttcttcaccaagctcctcgacaaggagggcgactcggaggcgcactcgccggtggtctacgacgatgccggggtcacctacatgttcatccagcacaacaacgtgttcctactaaccgcctcccgccagaactgcaacgccgccagcatcctcctcttcctccaccgcgtcgttgatgtgttcaagcactatttcgaagagttggaggaagagtcgctgagggataactttgtcgttgtgtatgagttgcttgatgaaatgatggattttgggtacccacaatacacggaggcgaaaatcttaagtgaattcattaagacggatgcgtacaggatggaggtatcacagaggccacctatggcagtgacaaatgccgtgtcatggcggagtgagggtattcggtacaagaagaatgaagtgttcttggatgttgtggagagtgttaacattcttgttaacagcaatgggcagattgtgagatcagatgttgttggggcactgaagatgcggacatatttgagtggaatgcctgagtgcaaacttggattgaacgatagggttcttttggaggctcaaggccgagctactaaaggaaaagcaatagatcttgatgatattaaatttcaccagtgcgtgaggttggctagatttgagaatgatagaactatatccttcatacctcctgacggatctttcgatctaatgacatacagacttagcacccaggtaaaaccacttatctgggtggaagcacaaattgagaaacattcaagaagccgaatagaacttatggtgaaagcaagaagtcagtttaaggaaaggagcacagcaacaaatgttgaaattgaagtgcctgttccttcagatgctacgaaccctaatataagaacttcaatgggctctgctgcatatgcacctgagagagatgcaatggtctggaaagtaaaatcatttcctggtggcaaggattacatgtgcagagctgaatttagtcttccaagtataactgcagaagaagcagctcctgaaaagaaggcaccaatacgagtgaaatttgagataccatatttcactgtgtcgggtattcaggttcgctatctgaagatcattgaaaagagtgggtaccaggcgcttccttgggttagatacattacaatggctggtgaatacgaactgagacttatatga</cdnaseq>|
AA = <aaseq>MAGAVSALFLLDIKGRVLVWRDYRGDVSALQAERFFTKLLDKEG DSEAHSPVVYDDAGVTYMFIQHNNVFLLTASRQNCNAASILLFLHRVVDVFKHYFEEL EEESLRDNFVVVYELLDEMMDFGYPQYTEAKILSEFIKTDAYRMEVSQRPPMAVTNAV SWRSEGIRYKKNEVFLDVVESVNILVNSNGQIVRSDVVGALKMRTYLSGMPECKLGLN DRVLLEAQGRATKGKAIDLDDIKFHQCVRLARFENDRTISFIPPDGSFDLMTYRLSTQ VKPLIWVEAQIEKHSRSRIELMVKARSQFKERSTATNVEIEVPVPSDATNPNIRTSMG SAAYAPERDAMVWKVKSFPGGKDYMCRAEFSLPSITAEEAAPEKKAPIRVKFEIPYFT VSGIQVRYLKIIEKSGYQALPWVRYITMAGEYELRLI</aaseq>|
DNA = <dnaseqindica>241..369#471..620#708..770#863..1039#1119..1222#2465..2572#2659..2755#2863..2960#3041..3182#3264..3386#3484..3582#cgtctccactcccgatctccccgctccccgcgtcccgtctccgatccacccaaacacccgcaccgccgcgctacgcgagcacggcaccgcggcgcggcgcgactccgcaggcgacaagccgaggagaatcccgcgcccgcccgcccgcatcaccgccggatggccgccggccgtcgccggtagggcgataggcgggtagatccagatccggcggggcgggatcatatacaccccgcgccgatggcgggcgcggtgtcggcgctgttccttctggacatcaagggccgcgtcctcgtctggcgcgactaccgcggcgacgtctccgccctccaggctgagcgcttcttcaccaagctcctcgacaaggaggtaagcgctcgcgcatcccggcctctctctatctcctcgtcctcgtaggatctatgtggctcgccggtggcgttgcgcgctaagctgatgtgaaccaacagggcgactcggaggcgcactcgccggtggtctacgacgatgccggggtcacctacatgttcatccagcacaacaacgtgttcctactaaccgcctcccgccagaactgcaacgccgccagcatcctcctcttcctccaccgcgtcgttgatgtacgtatacccaccctggatcctgggacgcagatgacatgttcagcgttcagtttgttcacgaagttggtttgtgcatgagtgcaggtgttcaagcactatttcgaagagttggaggaagagtcgctgagggataactttgtcgttgtggtaagtaatggtgcaagcagctaagcatcactctggtttgctgcacaatctactggatttgacacaagatggtgtttgatttgtgcctgcagtatgagttgcttgatgaaatgatggattttgggtacccacaatacacggaggcgaaaatcttaagtgaattcattaagacggatgcgtacaggatggaggtatcacagaggccacctatggcagtgacaaatgccgtgtcatggcggagtgagggtattcggtacaagaagaatgaagtaagatacaggctcactctgttattttgggtagttttgtgatggtgctttccaaattatctaaccgatgtgtttccaggtgttcttggatgttgtggagagtgttaacattcttgttaacagcaatgggcagattgtgagatcagatgttgttggggcactgaagatgcggacatatttgaggtgagcctacaatgttattgtggaactagtagtatgatatctggatctgtaattcaatagggatcacatttatatgagtgaacattcagggtaccttcaatcggatctcaccaatagatgaagtgtccaacctaattgcccatttagaagaccatttatcagaaaattgaactgtttaagtgatggcctaagcaaacttttttactttctttatttgtgaagtaaacgcgtcatcttacttgctggttcatatgctcatttttcctgtaatcatgcatttaatatgtatttgtattccaattgttccattcttatgtgtgtcaaactaagtattatactaccgcttcacttctgaaatttcatgattttatcatgtagccatagtgtttcattgaccttttgcctttgaaagttttcaggaagtcttattctagaaacctcttcgtctctaacagattactgcttgtagattcttctgttatgcaactagatctatcataaatcttggacaaagaaatgaaagcatgctgaatgtcttttgagctagatcaatttccatgcaatactatctgacgactttagaattggttcaaagttcaaacgtcaactattgttatatgaatttgatttgccaaggctatcacgtatttgtataaagaactgctattgccacacattaaatcatcaaggaatttgatcaaggtagaaattcactctgtaagcactacctgggagatgtgccgcaccgtttttttctaatttttaaaatgtctatgcatcttttatatcccatattcagaaagaatggtggtctctcatatgatcataaagtgacttgcagttgaaagatggacatacaatttatgacctgggaacatcgatactgcatttcaagtgtttgatgttggccatacccatcacaaaatgttagcaaatacctctaaatgtcaattatagcttcggagcctacaaattaagattattaggatataagcaatgagagtgctttgcagattaccagaatttgggagtattccgtttaatttgtttcagatgtctaccttttagcagacattctgaactgatcatctgatgatgctcatgcgccatgctccccatcgaattatgttttccatctatgtttcaaagttcaaattatttgtgttatgctgtcaccccaaccatttatgttttcctgcacatctctgacccccactaatactgaacaatattgtgaatcagtggaatgcctgagtgcaaacttggattgaacgatagggttcttttggaggctcaaggccgagctactaaaggaaaagcaatagatcttgatgatattaaatttcaccagtaagtaaacagtttagcatttttttcaagtcactttgacaatttgagcagggccatatatgacctctctcttctgttattactaggtgcgtgaggttggctagatttgagaatgatagaactatatccttcatacctcctgacggatctttcgatctaatgacatacagacttagcacccaggttttctctactgcttgtgatttacagctattggatgctttagatacctgaaatgcactgccttgctccgctattctcatgcctgtctttttttatatatccttaaggtaaaaccacttatctgggtggaagcacaaattgagaaacattcaagaagccgaatagaacttatggtgaaagcaagaagtcagtttaaggaaaggaggtgagcattttacaagagcaatgtttgctgttacactaatgcctcttggaaggtgacatatttcctattttcacctgcagcacagcaacaaatgttgaaattgaagtgcctgttccttcagatgctacgaaccctaatataagaacttcaatgggctctgctgcatatgcacctgagagagatgcaatggtctggaaagtaaaatcatttcctggtggcaaggtaagtttcaagccaagtcatctttgccttctacttcatgctacctagaagtgtgctaatatatgtgagtttttctgttaggattacatgtgcagagctgaatttagtcttccaagtataactgcagaagaagcagctcctgaaaagaaggcaccaatacgagtgaaatttgagataccatatttcactgtgtcgggtattcaggtaatcaaattactattgcaaatatgtacttgattgctcttatggtacttctttgctatcttcactcaaaatgtatgccatcttgtattttctgcaggttcgctatctgaagatcattgaaaagagtgggtaccaggcgcttccttgggttagatacattacaatggctggtgaatacgaactgagacttatatgagttatctctgatatggctgctcaaagattttgatgctaaatttcaactcccaagatacatgtttgatgctcgatatacaacatatagttggcattgggacgttgccatggaagtctttgaaaagctcaaccatgcaaggtttttctgtctcgttgttcatcttgttagtgttactttaccatggttactgtaagttacccatcaagtatagctttgaaaaaaactttttttttgttcacttgtatcattattgatttatttttgtgggtgtcgaactttcccccttttgtactacacaaaaatcttgagctgaattggtataaatgaaatacctgggcggtgcttttgaagtccagatt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001050536.1 RefSeq:Os01g0703600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 1]]
[[Category:Chromosome 1]]

File:QiaoFig9.gif

2014-05-31T15:02:53Z

Chenyaping:

Chenyaping:

The rice ''SHALLOT-LIKE1'' ('' SLL1'') gene, a member of KANADI family, is a key gene controlling rice leaf rolling.

==Annotated Information==
===Function===
[[File: ZhangF1.jpg|right|thumb|200px|Fig 1. ''sll1'' has extremely incurved leaves, with deficiency of sclerenchymatous cells at the abaxial side <ref name="ref1" />.]] [[File: ZhangF3.jpg|right|thumb|200px|Fig 3. Map-based cloning of ''SLL1'', which encodes an MYB transcription factor <ref name="ref1" />.]] [[File: ZhangF8.jpg|right|thumb|200px|Fig 8. ''Sll1'' alters adaxial-abaxial pattern formation <ref name="ref1" />.]] [[File: ZhangF10.jpg|right|thumb|200px|Fig 10. ''SLL1'' Affected multiple developmental processes in rice <ref name="ref1" />.]]

To investigate the molecular mechanisms of rice leaf rolling, a rice mutant population (''Oryza sativa'' L. ssp. ''japonica'' variety Nipponbare) generated by ethyl methanesulphonate mutagenesis was screened. Two allelic mutants with extremely incurved leaves were identified, designated as ''sll1-1'' and ''sll1-2'' (Fig. 1A ). ''sll1'', a rice mutant with shallot-like Leaves, displays abnormal sclerenchymatous cell development in the abaxial cell layers, altered mesophyll cell distribution, increased amounts of chlorophyll, and enhanced photosynthesis <ref name="ref1" />.

Genetic analysis revealed that the abnormal character of ''sll1'' was controlled by a single recessive gene. To isolate the relevant mutant gene, ''SLL1'' was mapped to the long arm of rice chromosome 9 between markers RM1896 and RM3700. A large F2 mapping population was then generated, allowing the fine-mapping of ''SLL1'' to a 29.57-kb region, using the sequence tagged site and simple sequence repeat markers (Fig. 3A). Three annotated candidate genes, encoding a hypothetical protein, an En/Spm-like transposon, and a transcription factor containing a MYB-like domain, respectively, were located in this region. Further amplification of the relevant DNA fragments and sequence comparison revealed differences in ''sll1-1'' and ''sll1-2'' alleles in the gene encoding the transcription factor containing the MYB-like domain. Comparison with the corresponding genomic sequence revealed that the ''SLL1'' gene consists of six exons and five introns. The gene encodes a 377–amino acid MYB family transcription factor (Fig. 3B). Homologous analysis showed that ''SLL1'' shares high similarity with the KANADI family members in ''Arabidopsis''.

A distinguishing characteristic of the monocot leaf is that microhairs or ligules are present only at the adaxial surface. In ''sll1-1'', the microhairs can be observed on both epidermal surfaces of some plants (Fig. 8A ), and the ligules exist on the abaxial side of the joint (Fig. 8B). This suggests an adaxialized trend in the abaxial epidermis of ''sll1-1'' and indicates the involvement of ''SLL1'' in the development of polarity throughout the leaf abaxial epidermis. ''SLL1'' overexpression resulted in dwarf plants with twisted and abnormal inner rolled leaves. We also observed enlarged phloem in the midrib as well as large and small veins, revealing the enhanced abaxial features of leaves following ''SLL1'' overexpression.

''SLL1'' affected developmental processes in multiple developmental stages, in accordance with its expression patterns. Aside from altered leaf morphology, other tissues, including seeds, anthers, and roots, displayed abnormal development in ''sll1'' mutants (Fig. 10).

===Expression===
[[File: ZhangF5.jpg|right|thumb|200px|Fig 5. ''SLL1'' expression pattern analysis <ref name="ref1" />.]]

Quantitative real-time RT-PCR (qRT-PCR) analysis revealed the expression of ''SLL1'' in various tissues, including roots, stems, leaves, flowers, and seedlings, with relatively high expression in leaf and seedlings (Fig. 5A , top panel). With an emphasis on the leaf, analysis by qRT-PCR showed that ''SLL1'' is ubiquitously expressed in shoot apical meristem (SAM), leaf blade, or leaf sheath at different developmental stages (Figure 5A, bottom panel).

To assess the expression pattern comprehensively, β-glucuronidase (GUS) activity was examined histochemically in transgenic plants carrying an ''SLL1'' promoter-GUS reporter gene. Results showed that ''SLL1'' was transcribed in stem (Fig. 5B, panels 1 and 2), anthers of young or mature flowers (Fig. 5B, panels 3 to 5), pistil tip (Fig. 5B, panel 6), glume (Fig. 5B, panel 7), vascular tissues of mature seeds (Fig. 5B, panels 8 and 9), coleoptile and embryonic root of germinating seedlings (Fig. 5B, panel 10), and root vascular tissues (Fig. 5B, panel 11). In addition, ''SLL1'' is highly transcribed in leaf veins and leaf sheath (Fig. 5C, panels 1 to 3), guard cells, and tracheal elements (Fig. 5C, panels 4 and 5).

The spatial and temporal localization of ''SLL1'' during leaf development was further examined by in situ hybridization analysis. The mRNA expression of ''SLL1'' was detected throughout the young leaf primordium (plastochrons 1 to 3) and was more intense in abaxial cell layer through leaf development (plastochrons 4 and 5) (Fig. 5D, panel 2). However, the ''SLL1'' transcript did not demonstrate apical/basal polarity and did not accumulate at the apex of the meristem (Fig.e 5D, panel 3). Cross-section analysis of the shoot apex showed that ''SLL1'' was more highly expressed in the abaxial cell layer, including the epidermis and vasculature of the early leaf blade (Fig. 5D, panels 5 and 6). In the mature leaf, ''SLL1'' mainly accumulated at the abaxial epidermis, abaxial mesophyll cells, and vasculature (Fig. 5D, panels 8 and 9). In contrast with the sense probe (Fig. 5D, panels 4 and 7), ''SLL1'' was transcribed at a relatively low level throughout other leaf positions including the adaxial epidermis (Fig. 5D, panels 5 and 6).

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
*State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, Zhejiang, China
*National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China

==References==
<references>
<ref name="ref1">Zhang GH, et al. (2009) ''SHALLOT-LIKE1'' is a KANADI transcription factor that modulates rice leaf rolling by regulating leaf abaxial cell development. The Plant Cell Online 21: 719-735.</ref>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0395300|
Description = Similar to CDPK substrate protein 1|
Version = NM_001069632.1 GI:115479006 GeneID:4346973|
Length = 7672 bp|
Definition = Oryza sativa Japonica Group Os09g0395300, 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 9|Chromosome 9]]|
AP = Chromosome 9:14411926..14419597|
CDS = 14411926..14412128,14413047..14413888,14413990..14414066,14414656..14414701,14414841..14415084 ,14418440..14418512,14419481..14419597|
GCID = <gbrowseImage1>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</cdnaseq>|
AA = <aaseq>MAMVRELELMTSWSNSMGRHRYPTRILVDSFGHKCSASDKGVWT SCSIRAPLQGRGSFRRGANIRFGSLPSSAAVATSGGGRGGGGVVVGGGGGDPWRRLDG STASTELSLSPPPAQAAGGGGGGGGADALPWRHRPSPPSSAVATTSAAAAAALMAPMM LQPLDAGGGASAPPPPIRGIPIYNGPGGFPFLQPSPTAGDVGHHHHHHPKMGFYSSYH HPSTWPSTSPSPLAAPPGAASSPLDPTAAFLSSPHHRMLSAASGRLNGMLSVSDTLRS YGVPGAAAPGVIGGAHHHHHHLHGGQPFVGALASRFMPKLPAKRSMRAPRMRWTSTLH ARFVHAVELLGGHERATPKSVLELMDVKDLTLAHVKSHLQMYRTVKSTDKPAASSGPA DGGSGDEEFAGGGQAASGGGDSMCLRGGGGGGVAAAAFAEHGRSASEGAASSVGGGGG GDMDQSSAGNTSTTRWSNSSRDPWLSSNSCNMDAHRSVGLSSPIEVLALPLASLIMSD TAYLFFSSNHGRCEPASLDQKLADI</aaseq>|
DNA = <dnaseqindica>1..203#1122..1963#2065..2141#2731..2776#2916..3159#6515..6587#7556..7672#atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggaggtatgagactacgctccatggtggagcgttgggcgtgaccttagtgtgcgcatatgtaagctgtatgcgtacgtataaatgttgagcttgcagtacatgtatacttgtttttttcttcttttttatgaggtcctttaattccattgtctgtattatttatgctagtatggaggatgatggtggcagtgacataaagtatacaaaaagcatagtatagtatacgtatggaaacaaaagcatgctacctttgactccacttgcattgcctgctaactgccattatttaaggaatacatggttgaatgcctgcctaaacatcaagataacctcacattctcctctctctctctcctaccttgcaattaagggtagcagcagtactctcctcactgctggctgactgctcccattttctctctctactctctctctctctctctcctctattccttttatacttgttgttggtagctaggagtatagcaggacagcacaaggaaccaattcatgcatatatccctggtgtctctcatgcatgttagtgtgaagaaagaagaagcttgagagagaagagagagttagagagagaaagtagagtgtttgtagagagagaaagtggtgtgtgtactagtagtaactccaagccagtgctagagacagagatacaaaaaggagacatcatccttctcttggccaaagcaagcaaccaagcaaagcttcctcttcttctccaagaactccaagaaccttctccttcatcttctccaccatgattccttccatcgcatgagctccatctccggcgtgtcgatcgagatcaccgttgctgctgccgaggtggagaaggaggtgtttgatcgatcggtcgatggaggcgagctcggcggcgacgccaccggacctgtcgctgcacatcagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagtacgcccccgccatcatcgtcgtcgtcctcctcctccttctcaccaccatcatcaacgagctcgatcaatctgatgagaatccaatcttgttcttggcaggggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccaggtatcccgccattgccgaccaattctcacagctcgatcgatcgatcaaacaccactcaccactgcaccatctctctctttctctctctcgatttcgattccattcagcttctgttcttgatcatcttgtttgggtgagacaaagatgccaatgcagtaactcctgagttagtgaagaaactgccattcttgggagcagagagagagagtgtgtgtgtgacatgtttggggatgtgtgtgcaagagagaagagagagagagaggggaaaaaagttgccatcattacacaataatgcattgcatctgcatctgtgctactagctccttccttagctctagtcatactagcgtatatgtgcacggcccaaagcactctcacacacaaacacaagagagagagagagagagagaagaagaagatgagagatgagagagagtaggacatattttgtgtgtgtttctttgctgcttgtcttttgcaatggcttcaacctcctggtttcattttgatctcacaaaaaatgtgtgtgtgtgtgtaaatatatatattgatcttctttttgttggacttttgtgttttattactgcagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcaggtgattttttttaccatggcagctactagtagtagtagtagtagctaatttagctaagctccattttgcttttctttttttttggcgttgtgcattgcgttttacattacattgttgctatggtttttttgacgtgtagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaaggtacacacatggcagagttgcatttcaagtctttcagattaattatatatctacattgttatgccatctttaattaattaaaaatgaaattaatcaatcagaatgtcatgagatgatgatgatgatgataataatactaggataggaagaggatgatatgatggatgggtgtgctatgtgtgtttttaagtgtgttttagcttagaaccaaaggcaacaccaacaaactttggcatgcattgatgatgtatctaaatatgagttagtgacatgcaaaattaacctgccaagtacaacctctatttattaattcccaaaaaaatctcatggaggagaagggagagagagagatagtagtaatgtgtggtgatgcatggctaaaaaagcttagcaaaagaatgttttgggggcacacacacacacacctggagagggagttgcctatgtttaggtggccaatgttgttatgtcacacaaaagaccaaaaagtcacacaccccatggcttggcctcctcctccccccttgacctgtgcagttagctaggcttcttctcttctctccctctgtgtttggtttttgtggagctaaaaacattttaaaaatcttgcaaacattgtgtgtaaaaataggttcttgggctctgcccattgtcctctagcttctctcaaatctctctctctctctctctctctctctctctctttctcaaacctagggaggggagggttactcaggcagggctccattatcatttcttatcaatgcatggctctgattccagggggatggggctttgacctgacatgccctattgcctaggaatatgtaaccaaggacttgctgcattcttggttctttctccctctctcaccagtctcttcaatgcccttttcttccacctcttgggcaattattagcatggatggagctcaccttttcactctaccctctagctgtgattaaatcattgactaatcctaattcataaatataagggattcaactatgtaactagatgtactagatcctagtattactagtgtgttttgattctgttaggaggagtgattagcgtttgtcgtaagtactagtattaaactataggggattagtgtagatcatttttttaaaaattagtgagtgtgcttgggcagattttactccagccattggcgtgaaaactttgatctttgggcagcttggaagcaagtacagttcaacctgtccttggctgcattcgctgctttttctttctcaggactcactgcaactttcttgccatccccaacacctccctttcggtcgtgtttgatcagttgcattgctggtttcttcgccgctttaatttctccatctttcttctgttccttattggctaagtaaaaaatcattctcagcaatcaagttttgaaattcaaattagcttcaggttttatctatctaataattctctgactagttctctttctttcaagacctgttcttgttcagaactcttatgcagttgagagttcagttgttcatggaagtaatggcaatgcctggtctagtctttgagcagtatcctccttatgctcttgattttccttcactttagccgtttcagtcaaactttggggacaaattaaagtcagctggtcaagtgcatacataccacgtcatattttttagatgaatccattgtagtattaaatactagtgacaaaaaaatataactaaatggcattaaattgcaaccttcttccccaaaataattgggcacaactaccttgcttgcatatgctttatagtactcctacttattacttccttgaatccatgaggattccaggaatttggtcaggtcaaatgtccaggaggaattaggctatctttttttatcttcttctttttcttctaggtagtaggatcgttgtgcacatataaacaaaacaaaatagaaatttaagaggaaaccctcccaaaaaaaatacgactatcaattatgagtgattttacagttcttgaggaggtacaatgatacattttctattttaaaattcagtaactttgatactatgaggtacagaaatttgcacaaaaaaaatttggtacctctcaagtacttaaaatatcttatcaattatatttcagcaatgttgtcgttgctcgagttgtgcaaaaacatttctgatgaacaagtggagatgtatgcatatttagagagggaaacacatgcattttttaatatacattctcatgacaaattttggtgttctcgtctcattttagtctagcttagattaatggcatccatatattggtgaactgaaacagattgtatatgtccagtcttgaacaaacttcattatacaatgcataatcagaaaagatacagacatatattggcagatcacataaagtggtgtatctatgattgggtggtattttggacatacaaagtctactggtccctcatttgttaacagcatacatttgttcctatcaagacaaaagcactttacaacagtttggtagtaagttggtgttatgtgcgtgtctatttagatagagtggtagtaaaggaaggacactttttcttgatataccaaaatcacacataaaaaagaagtgtcattttcatgatcaacatgtggggtatgaacaaaaatgttctcccccctccaaccaacattgaagtcatcacacataaaaagcaaaaacatttaacaataatacatgcagacacatgtgcatgcatgtgtggatcacgcaaggacatactaattcaattaggtattcacaattaattagtgcaggaaatgacatgtaattacaattatatatgcacaacgatccttgtgtatttgtgtgacccattgtagtagcatttgattcctttcttgtgcctttctctacattgaattcgatctttgccaacagcggcttgctgatgagctcctgtgccattgcactgctgagctgcaccaaacagggacatcttttaagagcttgttgcctggaaatgatccatgtaaccaactgttcaggaagagcacactgtttgctgctcactttagctaaagcaaaactgtgtgcattatgcaatgcatatgcatccttccatctacccctgtgtcctttgccccccaaactgtgtaactacagtttaccatgcacatacatacaatgcacatctacccaattgtagcattgttgcaaggcctacttcagaattcagttagtccccaattgatccaactgcacacatatacatttacatatacatatacacaaacataccagcttggagaaaaggttgtaacaactttgctaaatgtgagatgtgtaatgtgtgttcttcctcttttcagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggtatatatccttacattgttcaaagcttctttcgattcctagctaactgcatatccatgcagaaattcattagctcgcattcattctgaacatgatgtctgaaactctgaattttttttcgtttgtgcgtgtttcagaacttggaaccgtgcagatcgagcagctcgcaggtgtccaaccatgagctgagtagccctagtctcgagttcactctagggaggcctgactggcacggtgcagatcatgattagatggcaatcacagaggctaatgatcaaaaaaaaatttctcctgagatgtgaaatatatatgtgatatacaccaacctggtgctgatcatctttcgccaaccccagcttagccagagccagttcgtctgaagcttgtcatggcgaagaatgatcagcagcaatggcttgaaacgcacatcatatccactgcgtcgtcgtcatcgtcgtcgcaatcgatcggagaagagatatatatttcgcgtctcgatctcatcatcacaatttgggttttcttgattccttcttcttcttctttttgcaattaatatcatggatgcagctagagtttccttgtctgatctccatatttatttagttttgttcgccgtgccgggatcgatttacagtgtagttcagtggtgagctagctagctagagagtgagtgagtgagtgtcagctaggcagctggagatcgagagtgtgagtttggtgatgagttggttgtgtgtttgtcagtgtgtgtgaaagtgtgtgtgccattagcacatggaaagttggaaaggagagaaaggaagaaagaaaagggaattgagttcaggtgaagcaatctgccaatctatctagctacctatctatccatctacttagctcagttgctcagatgatgatctcagatttccatggcccttttttgtgtgcatgcatgccgcatatgcttctttctttaatccctgcaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069632.1 RefSeq:Os09g0395300]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

File:ZhangF10.jpg

2014-05-30T11:49:09Z

Chenyaping:

File:ZhangF8.jpg

2014-05-30T11:48:47Z

Chenyaping:

Os09g0395300

2014-05-30T11:47:39Z

Chenyaping:

The rice ''SHALLOT-LIKE1'' ('' SLL1'') gene, a member of KANADI family, is a key gene controlling rice leaf rolling.

==Annotated Information==
===Function===
[[File:ZhangF1.jpg|right|thumb|200px|Fig 1. ''sll1'' has extremely incurved leaves, with deficiency of sclerenchymatous cells at the abaxial side <ref name="ref1" />.]] [[File:ZhangF3.jpg|right|thumb|200px|Fig 3. Map-based cloning of ''SLL1'', which encodes an MYB transcription factor <ref name="ref1" />.]]

To investigate the molecular mechanisms of rice leaf rolling, a rice mutant population (''Oryza sativa'' L. ssp. ''japonica'' variety Nipponbare) generated by ethyl methanesulphonate mutagenesis was screened. Two allelic mutants with extremely incurved leaves were identified, designated as ''sll1-1'' and ''sll1-2'' (Fig. 1A ). ''sll1'', a rice mutant with shallot-like Leaves, displays abnormal sclerenchymatous cell development in the abaxial cell layers, altered mesophyll cell distribution, increased amounts of chlorophyll, and enhanced photosynthesis <ref name="ref1" />.

Genetic analysis revealed that the abnormal character of ''sll1'' was controlled by a single recessive gene. To isolate the relevant mutant gene, ''SLL1'' was mapped to the long arm of rice chromosome 9 between markers RM1896 and RM3700. A large F2 mapping population was then generated, allowing the fine-mapping of ''SLL1'' to a 29.57-kb region, using the sequence tagged site and simple sequence repeat markers (Fig. 3A). Three annotated candidate genes, encoding a hypothetical protein, an En/Spm-like transposon, and a transcription factor containing a MYB-like domain, respectively, were located in this region. Further amplification of the relevant DNA fragments and sequence comparison revealed differences in ''sll1-1'' and ''sll1-2'' alleles in the gene encoding the transcription factor containing the MYB-like domain. Comparison with the corresponding genomic sequence revealed that the ''SLL1'' gene consists of six exons and five introns. The gene encodes a 377–amino acid MYB family transcription factor (Fig. 3B). Homologous analysis showed that ''SLL1'' shares high similarity with the KANADI family members in ''Arabidopsis''.

A distinguishing characteristic of the monocot leaf is that microhairs or ligules are present only at the adaxial surface. In ''sll1-1'', the microhairs can be observed on both epidermal surfaces of some plants (Fig. 8A ), and the ligules exist on the abaxial side of the joint (Fig. 8B). This suggests an adaxialized trend in the abaxial epidermis of ''sll1-1'' and indicates the involvement of ''SLL1'' in the development of polarity throughout the leaf abaxial epidermis. ''SLL1'' overexpression resulted in dwarf plants with twisted and abnormal inner rolled leaves. We also observed enlarged phloem in the midrib as well as large and small veins, revealing the enhanced abaxial features of leaves following ''SLL1'' overexpression.

''SLL1'' affected developmental processes in multiple developmental stages, in accordance with its expression patterns. Aside from altered leaf morphology, other tissues, including seeds, anthers, and roots, displayed abnormal development in ''sll1'' mutants.

===Expression===
[[File:ZhangF5.jpg|right|thumb|200px|Fig 5. ''SLL1'' Expression Pattern Analysis <ref name="ref1" />.]]

Quantitative real-time RT-PCR (qRT-PCR) analysis revealed the expression of ''SLL1'' in various tissues, including roots, stems, leaves, flowers, and seedlings, with relatively high expression in leaf and seedlings (Fig. 5A , top panel). With an emphasis on the leaf, analysis by qRT-PCR showed that ''SLL1'' is ubiquitously expressed in shoot apical meristem (SAM), leaf blade, or leaf sheath at different developmental stages (Figure 5A, bottom panel).

To assess the expression pattern comprehensively, β-glucuronidase (GUS) activity was examined histochemically in transgenic plants carrying an ''SLL1'' promoter-GUS reporter gene. Results showed that ''SLL1'' was transcribed in stem (Fig. 5B, panels 1 and 2), anthers of young or mature flowers (Fig. 5B, panels 3 to 5), pistil tip (Fig. 5B, panel 6), glume (Fig. 5B, panel 7), vascular tissues of mature seeds (Fig. 5B, panels 8 and 9), coleoptile and embryonic root of germinating seedlings (Fig. 5B, panel 10), and root vascular tissues (Fig. 5B, panel 11). In addition, ''SLL1'' is highly transcribed in leaf veins and leaf sheath (Fig. 5C, panels 1 to 3), guard cells, and tracheal elements (Fig. 5C, panels 4 and 5).

The spatial and temporal localization of ''SLL1'' during leaf development was further examined by in situ hybridization analysis. The mRNA expression of ''SLL1'' was detected throughout the young leaf primordium (plastochrons 1 to 3) and was more intense in abaxial cell layer through leaf development (plastochrons 4 and 5) (Fig. 5D, panel 2). However, the ''SLL1'' transcript did not demonstrate apical/basal polarity and did not accumulate at the apex of the meristem (Fig.e 5D, panel 3). Cross-section analysis of the shoot apex showed that ''SLL1'' was more highly expressed in the abaxial cell layer, including the epidermis and vasculature of the early leaf blade (Fig. 5D, panels 5 and 6). In the mature leaf, ''SLL1'' mainly accumulated at the abaxial epidermis, abaxial mesophyll cells, and vasculature (Fig. 5D, panels 8 and 9). In contrast with the sense probe (Fig. 5D, panels 4 and 7), ''SLL1'' was transcribed at a relatively low level throughout other leaf positions including the adaxial epidermis (Fig. 5D, panels 5 and 6).

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
*State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, Zhejiang, China
*National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China

==References==
<references>
<ref name="ref1">Zhang GH, et al. (2009) ''SHALLOT-LIKE1'' is a KANADI transcription factor that modulates rice leaf rolling by regulating leaf abaxial cell development. The Plant Cell Online 21: 719-735.</ref>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0395300|
Description = Similar to CDPK substrate protein 1|
Version = NM_001069632.1 GI:115479006 GeneID:4346973|
Length = 7672 bp|
Definition = Oryza sativa Japonica Group Os09g0395300, 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 9|Chromosome 9]]|
AP = Chromosome 9:14411926..14419597|
CDS = 14411926..14412128,14413047..14413888,14413990..14414066,14414656..14414701,14414841..14415084 ,14418440..14418512,14419481..14419597|
GCID = <gbrowseImage1>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</cdnaseq>|
AA = <aaseq>MAMVRELELMTSWSNSMGRHRYPTRILVDSFGHKCSASDKGVWT SCSIRAPLQGRGSFRRGANIRFGSLPSSAAVATSGGGRGGGGVVVGGGGGDPWRRLDG STASTELSLSPPPAQAAGGGGGGGGADALPWRHRPSPPSSAVATTSAAAAAALMAPMM LQPLDAGGGASAPPPPIRGIPIYNGPGGFPFLQPSPTAGDVGHHHHHHPKMGFYSSYH HPSTWPSTSPSPLAAPPGAASSPLDPTAAFLSSPHHRMLSAASGRLNGMLSVSDTLRS YGVPGAAAPGVIGGAHHHHHHLHGGQPFVGALASRFMPKLPAKRSMRAPRMRWTSTLH ARFVHAVELLGGHERATPKSVLELMDVKDLTLAHVKSHLQMYRTVKSTDKPAASSGPA DGGSGDEEFAGGGQAASGGGDSMCLRGGGGGGVAAAAFAEHGRSASEGAASSVGGGGG GDMDQSSAGNTSTTRWSNSSRDPWLSSNSCNMDAHRSVGLSSPIEVLALPLASLIMSD TAYLFFSSNHGRCEPASLDQKLADI</aaseq>|
DNA = <dnaseqindica>1..203#1122..1963#2065..2141#2731..2776#2916..3159#6515..6587#7556..7672#atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggaggtatgagactacgctccatggtggagcgttgggcgtgaccttagtgtgcgcatatgtaagctgtatgcgtacgtataaatgttgagcttgcagtacatgtatacttgtttttttcttcttttttatgaggtcctttaattccattgtctgtattatttatgctagtatggaggatgatggtggcagtgacataaagtatacaaaaagcatagtatagtatacgtatggaaacaaaagcatgctacctttgactccacttgcattgcctgctaactgccattatttaaggaatacatggttgaatgcctgcctaaacatcaagataacctcacattctcctctctctctctcctaccttgcaattaagggtagcagcagtactctcctcactgctggctgactgctcccattttctctctctactctctctctctctctctcctctattccttttatacttgttgttggtagctaggagtatagcaggacagcacaaggaaccaattcatgcatatatccctggtgtctctcatgcatgttagtgtgaagaaagaagaagcttgagagagaagagagagttagagagagaaagtagagtgtttgtagagagagaaagtggtgtgtgtactagtagtaactccaagccagtgctagagacagagatacaaaaaggagacatcatccttctcttggccaaagcaagcaaccaagcaaagcttcctcttcttctccaagaactccaagaaccttctccttcatcttctccaccatgattccttccatcgcatgagctccatctccggcgtgtcgatcgagatcaccgttgctgctgccgaggtggagaaggaggtgtttgatcgatcggtcgatggaggcgagctcggcggcgacgccaccggacctgtcgctgcacatcagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagtacgcccccgccatcatcgtcgtcgtcctcctcctccttctcaccaccatcatcaacgagctcgatcaatctgatgagaatccaatcttgttcttggcaggggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccaggtatcccgccattgccgaccaattctcacagctcgatcgatcgatcaaacaccactcaccactgcaccatctctctctttctctctctcgatttcgattccattcagcttctgttcttgatcatcttgtttgggtgagacaaagatgccaatgcagtaactcctgagttagtgaagaaactgccattcttgggagcagagagagagagtgtgtgtgtgacatgtttggggatgtgtgtgcaagagagaagagagagagagaggggaaaaaagttgccatcattacacaataatgcattgcatctgcatctgtgctactagctccttccttagctctagtcatactagcgtatatgtgcacggcccaaagcactctcacacacaaacacaagagagagagagagagagagaagaagaagatgagagatgagagagagtaggacatattttgtgtgtgtttctttgctgcttgtcttttgcaatggcttcaacctcctggtttcattttgatctcacaaaaaatgtgtgtgtgtgtgtaaatatatatattgatcttctttttgttggacttttgtgttttattactgcagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcaggtgattttttttaccatggcagctactagtagtagtagtagtagctaatttagctaagctccattttgcttttctttttttttggcgttgtgcattgcgttttacattacattgttgctatggtttttttgacgtgtagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaaggtacacacatggcagagttgcatttcaagtctttcagattaattatatatctacattgttatgccatctttaattaattaaaaatgaaattaatcaatcagaatgtcatgagatgatgatgatgatgataataatactaggataggaagaggatgatatgatggatgggtgtgctatgtgtgtttttaagtgtgttttagcttagaaccaaaggcaacaccaacaaactttggcatgcattgatgatgtatctaaatatgagttagtgacatgcaaaattaacctgccaagtacaacctctatttattaattcccaaaaaaatctcatggaggagaagggagagagagagatagtagtaatgtgtggtgatgcatggctaaaaaagcttagcaaaagaatgttttgggggcacacacacacacacctggagagggagttgcctatgtttaggtggccaatgttgttatgtcacacaaaagaccaaaaagtcacacaccccatggcttggcctcctcctccccccttgacctgtgcagttagctaggcttcttctcttctctccctctgtgtttggtttttgtggagctaaaaacattttaaaaatcttgcaaacattgtgtgtaaaaataggttcttgggctctgcccattgtcctctagcttctctcaaatctctctctctctctctctctctctctctctctttctcaaacctagggaggggagggttactcaggcagggctccattatcatttcttatcaatgcatggctctgattccagggggatggggctttgacctgacatgccctattgcctaggaatatgtaaccaaggacttgctgcattcttggttctttctccctctctcaccagtctcttcaatgcccttttcttccacctcttgggcaattattagcatggatggagctcaccttttcactctaccctctagctgtgattaaatcattgactaatcctaattcataaatataagggattcaactatgtaactagatgtactagatcctagtattactagtgtgttttgattctgttaggaggagtgattagcgtttgtcgtaagtactagtattaaactataggggattagtgtagatcatttttttaaaaattagtgagtgtgcttgggcagattttactccagccattggcgtgaaaactttgatctttgggcagcttggaagcaagtacagttcaacctgtccttggctgcattcgctgctttttctttctcaggactcactgcaactttcttgccatccccaacacctccctttcggtcgtgtttgatcagttgcattgctggtttcttcgccgctttaatttctccatctttcttctgttccttattggctaagtaaaaaatcattctcagcaatcaagttttgaaattcaaattagcttcaggttttatctatctaataattctctgactagttctctttctttcaagacctgttcttgttcagaactcttatgcagttgagagttcagttgttcatggaagtaatggcaatgcctggtctagtctttgagcagtatcctccttatgctcttgattttccttcactttagccgtttcagtcaaactttggggacaaattaaagtcagctggtcaagtgcatacataccacgtcatattttttagatgaatccattgtagtattaaatactagtgacaaaaaaatataactaaatggcattaaattgcaaccttcttccccaaaataattgggcacaactaccttgcttgcatatgctttatagtactcctacttattacttccttgaatccatgaggattccaggaatttggtcaggtcaaatgtccaggaggaattaggctatctttttttatcttcttctttttcttctaggtagtaggatcgttgtgcacatataaacaaaacaaaatagaaatttaagaggaaaccctcccaaaaaaaatacgactatcaattatgagtgattttacagttcttgaggaggtacaatgatacattttctattttaaaattcagtaactttgatactatgaggtacagaaatttgcacaaaaaaaatttggtacctctcaagtacttaaaatatcttatcaattatatttcagcaatgttgtcgttgctcgagttgtgcaaaaacatttctgatgaacaagtggagatgtatgcatatttagagagggaaacacatgcattttttaatatacattctcatgacaaattttggtgttctcgtctcattttagtctagcttagattaatggcatccatatattggtgaactgaaacagattgtatatgtccagtcttgaacaaacttcattatacaatgcataatcagaaaagatacagacatatattggcagatcacataaagtggtgtatctatgattgggtggtattttggacatacaaagtctactggtccctcatttgttaacagcatacatttgttcctatcaagacaaaagcactttacaacagtttggtagtaagttggtgttatgtgcgtgtctatttagatagagtggtagtaaaggaaggacactttttcttgatataccaaaatcacacataaaaaagaagtgtcattttcatgatcaacatgtggggtatgaacaaaaatgttctcccccctccaaccaacattgaagtcatcacacataaaaagcaaaaacatttaacaataatacatgcagacacatgtgcatgcatgtgtggatcacgcaaggacatactaattcaattaggtattcacaattaattagtgcaggaaatgacatgtaattacaattatatatgcacaacgatccttgtgtatttgtgtgacccattgtagtagcatttgattcctttcttgtgcctttctctacattgaattcgatctttgccaacagcggcttgctgatgagctcctgtgccattgcactgctgagctgcaccaaacagggacatcttttaagagcttgttgcctggaaatgatccatgtaaccaactgttcaggaagagcacactgtttgctgctcactttagctaaagcaaaactgtgtgcattatgcaatgcatatgcatccttccatctacccctgtgtcctttgccccccaaactgtgtaactacagtttaccatgcacatacatacaatgcacatctacccaattgtagcattgttgcaaggcctacttcagaattcagttagtccccaattgatccaactgcacacatatacatttacatatacatatacacaaacataccagcttggagaaaaggttgtaacaactttgctaaatgtgagatgtgtaatgtgtgttcttcctcttttcagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggtatatatccttacattgttcaaagcttctttcgattcctagctaactgcatatccatgcagaaattcattagctcgcattcattctgaacatgatgtctgaaactctgaattttttttcgtttgtgcgtgtttcagaacttggaaccgtgcagatcgagcagctcgcaggtgtccaaccatgagctgagtagccctagtctcgagttcactctagggaggcctgactggcacggtgcagatcatgattagatggcaatcacagaggctaatgatcaaaaaaaaatttctcctgagatgtgaaatatatatgtgatatacaccaacctggtgctgatcatctttcgccaaccccagcttagccagagccagttcgtctgaagcttgtcatggcgaagaatgatcagcagcaatggcttgaaacgcacatcatatccactgcgtcgtcgtcatcgtcgtcgcaatcgatcggagaagagatatatatttcgcgtctcgatctcatcatcacaatttgggttttcttgattccttcttcttcttctttttgcaattaatatcatggatgcagctagagtttccttgtctgatctccatatttatttagttttgttcgccgtgccgggatcgatttacagtgtagttcagtggtgagctagctagctagagagtgagtgagtgagtgtcagctaggcagctggagatcgagagtgtgagtttggtgatgagttggttgtgtgtttgtcagtgtgtgtgaaagtgtgtgtgccattagcacatggaaagttggaaaggagagaaaggaagaaagaaaagggaattgagttcaggtgaagcaatctgccaatctatctagctacctatctatccatctacttagctcagttgctcagatgatgatctcagatttccatggcccttttttgtgtgcatgcatgccgcatatgcttctttctttaatccctgcaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069632.1 RefSeq:Os09g0395300]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

File:ZhangF3.jpg

2014-05-30T11:33:26Z

Chenyaping:

Os09g0395300

2014-05-30T11:32:24Z

Chenyaping: /* Annotated Information */

The rice ''SHALLOT-LIKE1'' ('' SLL1'') gene, a member of KANADI family, is a key gene controlling rice leaf rolling.

==Annotated Information==
===Function===
[[File:ZhangF1.jpg|right|thumb|200px|Fig 1.''sll1'' has extremely incurved leaves, with deficiency of sclerenchymatous cells at the abaxial side <ref name="ref1" />.]]

To investigate the molecular mechanisms of rice leaf rolling, a rice mutant population (''Oryza sativa'' L. ssp. ''japonica'' variety Nipponbare) generated by ethyl methanesulphonate mutagenesis was screened. Two allelic mutants with extremely incurved leaves were identified, designated as ''sll1-1'' and ''sll1-2'' (Fig. 1A ). ''sll1'', a rice mutant with shallot-like Leaves, displays abnormal sclerenchymatous cell development in the abaxial cell layers, altered mesophyll cell distribution, increased amounts of chlorophyll, and enhanced photosynthesis <ref name="ref1" />.

Genetic analysis revealed that the abnormal character of ''sll1'' was controlled by a single recessive gene. To isolate the relevant mutant gene, ''SLL1'' was mapped to the long arm of rice chromosome 9 between markers RM1896 and RM3700. A large F2 mapping population was then generated, allowing the fine-mapping of ''SLL1'' to a 29.57-kb region, using the sequence tagged site and simple sequence repeat markers (Fig. 3A). Three annotated candidate genes, encoding a hypothetical protein, an En/Spm-like transposon, and a transcription factor containing a MYB-like domain, respectively, were located in this region. Further amplification of the relevant DNA fragments and sequence comparison revealed differences in ''sll1-1'' and ''sll1-2'' alleles in the gene encoding the transcription factor containing the MYB-like domain. Comparison with the corresponding genomic sequence revealed that the ''SLL1'' gene consists of six exons and five introns. The gene encodes a 377–amino acid MYB family transcription factor (Fig. 3B). Homologous analysis showed that ''SLL1'' shares high similarity with the KANADI family members in ''Arabidopsis''.

===Expression===
[[File:ZhangF5.jpg|right|thumb|200px|Fig 5. ''SLL1'' Expression Pattern Analysis <ref name="ref1" />.]]

Quantitative real-time RT-PCR (qRT-PCR) analysis revealed the expression of ''SLL1'' in various tissues, including roots, stems, leaves, flowers, and seedlings, with relatively high expression in leaf and seedlings (Fig. 5A , top panel). With an emphasis on the leaf, analysis by qRT-PCR showed that ''SLL1'' is ubiquitously expressed in shoot apical meristem (SAM), leaf blade, or leaf sheath at different developmental stages (Figure 5A, bottom panel).

To assess the expression pattern comprehensively, β-glucuronidase (GUS) activity was examined histochemically in transgenic plants carrying an ''SLL1'' promoter-GUS reporter gene. Results showed that ''SLL1'' was transcribed in stem (Fig. 5B, panels 1 and 2), anthers of young or mature flowers (Fig. 5B, panels 3 to 5), pistil tip (Fig. 5B, panel 6), glume (Fig. 5B, panel 7), vascular tissues of mature seeds (Fig. 5B, panels 8 and 9), coleoptile and embryonic root of germinating seedlings (Fig. 5B, panel 10), and root vascular tissues (Fig. 5B, panel 11). In addition, ''SLL1'' is highly transcribed in leaf veins and leaf sheath (Fig. 5C, panels 1 to 3), guard cells, and tracheal elements (Fig. 5C, panels 4 and 5).

The spatial and temporal localization of ''SLL1'' during leaf development was further examined by in situ hybridization analysis. The mRNA expression of ''SLL1'' was detected throughout the young leaf primordium (plastochrons 1 to 3) and was more intense in abaxial cell layer through leaf development (plastochrons 4 and 5) (Fig. 5D, panel 2). However, the ''SLL1'' transcript did not demonstrate apical/basal polarity and did not accumulate at the apex of the meristem (Fig.e 5D, panel 3). Cross-section analysis of the shoot apex showed that ''SLL1'' was more highly expressed in the abaxial cell layer, including the epidermis and vasculature of the early leaf blade (Fig. 5D, panels 5 and 6). In the mature leaf, ''SLL1'' mainly accumulated at the abaxial epidermis, abaxial mesophyll cells, and vasculature (Fig. 5D, panels 8 and 9). In contrast with the sense probe (Fig. 5D, panels 4 and 7), ''SLL1'' was transcribed at a relatively low level throughout other leaf positions including the adaxial epidermis (Fig. 5D, panels 5 and 6).

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
*State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, Zhejiang, China
*National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China

==References==
<references>
<ref name="ref1">Zhang GH, et al. (2009) ''SHALLOT-LIKE1'' is a KANADI transcription factor that modulates rice leaf rolling by regulating leaf abaxial cell development. The Plant Cell Online 21: 719-735.</ref>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0395300|
Description = Similar to CDPK substrate protein 1|
Version = NM_001069632.1 GI:115479006 GeneID:4346973|
Length = 7672 bp|
Definition = Oryza sativa Japonica Group Os09g0395300, 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 9|Chromosome 9]]|
AP = Chromosome 9:14411926..14419597|
CDS = 14411926..14412128,14413047..14413888,14413990..14414066,14414656..14414701,14414841..14415084 ,14418440..14418512,14419481..14419597|
GCID = <gbrowseImage1>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</cdnaseq>|
AA = <aaseq>MAMVRELELMTSWSNSMGRHRYPTRILVDSFGHKCSASDKGVWT SCSIRAPLQGRGSFRRGANIRFGSLPSSAAVATSGGGRGGGGVVVGGGGGDPWRRLDG STASTELSLSPPPAQAAGGGGGGGGADALPWRHRPSPPSSAVATTSAAAAAALMAPMM LQPLDAGGGASAPPPPIRGIPIYNGPGGFPFLQPSPTAGDVGHHHHHHPKMGFYSSYH HPSTWPSTSPSPLAAPPGAASSPLDPTAAFLSSPHHRMLSAASGRLNGMLSVSDTLRS YGVPGAAAPGVIGGAHHHHHHLHGGQPFVGALASRFMPKLPAKRSMRAPRMRWTSTLH ARFVHAVELLGGHERATPKSVLELMDVKDLTLAHVKSHLQMYRTVKSTDKPAASSGPA DGGSGDEEFAGGGQAASGGGDSMCLRGGGGGGVAAAAFAEHGRSASEGAASSVGGGGG GDMDQSSAGNTSTTRWSNSSRDPWLSSNSCNMDAHRSVGLSSPIEVLALPLASLIMSD TAYLFFSSNHGRCEPASLDQKLADI</aaseq>|
DNA = <dnaseqindica>1..203#1122..1963#2065..2141#2731..2776#2916..3159#6515..6587#7556..7672#atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggaggtatgagactacgctccatggtggagcgttgggcgtgaccttagtgtgcgcatatgtaagctgtatgcgtacgtataaatgttgagcttgcagtacatgtatacttgtttttttcttcttttttatgaggtcctttaattccattgtctgtattatttatgctagtatggaggatgatggtggcagtgacataaagtatacaaaaagcatagtatagtatacgtatggaaacaaaagcatgctacctttgactccacttgcattgcctgctaactgccattatttaaggaatacatggttgaatgcctgcctaaacatcaagataacctcacattctcctctctctctctcctaccttgcaattaagggtagcagcagtactctcctcactgctggctgactgctcccattttctctctctactctctctctctctctctcctctattccttttatacttgttgttggtagctaggagtatagcaggacagcacaaggaaccaattcatgcatatatccctggtgtctctcatgcatgttagtgtgaagaaagaagaagcttgagagagaagagagagttagagagagaaagtagagtgtttgtagagagagaaagtggtgtgtgtactagtagtaactccaagccagtgctagagacagagatacaaaaaggagacatcatccttctcttggccaaagcaagcaaccaagcaaagcttcctcttcttctccaagaactccaagaaccttctccttcatcttctccaccatgattccttccatcgcatgagctccatctccggcgtgtcgatcgagatcaccgttgctgctgccgaggtggagaaggaggtgtttgatcgatcggtcgatggaggcgagctcggcggcgacgccaccggacctgtcgctgcacatcagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagtacgcccccgccatcatcgtcgtcgtcctcctcctccttctcaccaccatcatcaacgagctcgatcaatctgatgagaatccaatcttgttcttggcaggggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccaggtatcccgccattgccgaccaattctcacagctcgatcgatcgatcaaacaccactcaccactgcaccatctctctctttctctctctcgatttcgattccattcagcttctgttcttgatcatcttgtttgggtgagacaaagatgccaatgcagtaactcctgagttagtgaagaaactgccattcttgggagcagagagagagagtgtgtgtgtgacatgtttggggatgtgtgtgcaagagagaagagagagagagaggggaaaaaagttgccatcattacacaataatgcattgcatctgcatctgtgctactagctccttccttagctctagtcatactagcgtatatgtgcacggcccaaagcactctcacacacaaacacaagagagagagagagagagagaagaagaagatgagagatgagagagagtaggacatattttgtgtgtgtttctttgctgcttgtcttttgcaatggcttcaacctcctggtttcattttgatctcacaaaaaatgtgtgtgtgtgtgtaaatatatatattgatcttctttttgttggacttttgtgttttattactgcagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcaggtgattttttttaccatggcagctactagtagtagtagtagtagctaatttagctaagctccattttgcttttctttttttttggcgttgtgcattgcgttttacattacattgttgctatggtttttttgacgtgtagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaaggtacacacatggcagagttgcatttcaagtctttcagattaattatatatctacattgttatgccatctttaattaattaaaaatgaaattaatcaatcagaatgtcatgagatgatgatgatgatgataataatactaggataggaagaggatgatatgatggatgggtgtgctatgtgtgtttttaagtgtgttttagcttagaaccaaaggcaacaccaacaaactttggcatgcattgatgatgtatctaaatatgagttagtgacatgcaaaattaacctgccaagtacaacctctatttattaattcccaaaaaaatctcatggaggagaagggagagagagagatagtagtaatgtgtggtgatgcatggctaaaaaagcttagcaaaagaatgttttgggggcacacacacacacacctggagagggagttgcctatgtttaggtggccaatgttgttatgtcacacaaaagaccaaaaagtcacacaccccatggcttggcctcctcctccccccttgacctgtgcagttagctaggcttcttctcttctctccctctgtgtttggtttttgtggagctaaaaacattttaaaaatcttgcaaacattgtgtgtaaaaataggttcttgggctctgcccattgtcctctagcttctctcaaatctctctctctctctctctctctctctctctctttctcaaacctagggaggggagggttactcaggcagggctccattatcatttcttatcaatgcatggctctgattccagggggatggggctttgacctgacatgccctattgcctaggaatatgtaaccaaggacttgctgcattcttggttctttctccctctctcaccagtctcttcaatgcccttttcttccacctcttgggcaattattagcatggatggagctcaccttttcactctaccctctagctgtgattaaatcattgactaatcctaattcataaatataagggattcaactatgtaactagatgtactagatcctagtattactagtgtgttttgattctgttaggaggagtgattagcgtttgtcgtaagtactagtattaaactataggggattagtgtagatcatttttttaaaaattagtgagtgtgcttgggcagattttactccagccattggcgtgaaaactttgatctttgggcagcttggaagcaagtacagttcaacctgtccttggctgcattcgctgctttttctttctcaggactcactgcaactttcttgccatccccaacacctccctttcggtcgtgtttgatcagttgcattgctggtttcttcgccgctttaatttctccatctttcttctgttccttattggctaagtaaaaaatcattctcagcaatcaagttttgaaattcaaattagcttcaggttttatctatctaataattctctgactagttctctttctttcaagacctgttcttgttcagaactcttatgcagttgagagttcagttgttcatggaagtaatggcaatgcctggtctagtctttgagcagtatcctccttatgctcttgattttccttcactttagccgtttcagtcaaactttggggacaaattaaagtcagctggtcaagtgcatacataccacgtcatattttttagatgaatccattgtagtattaaatactagtgacaaaaaaatataactaaatggcattaaattgcaaccttcttccccaaaataattgggcacaactaccttgcttgcatatgctttatagtactcctacttattacttccttgaatccatgaggattccaggaatttggtcaggtcaaatgtccaggaggaattaggctatctttttttatcttcttctttttcttctaggtagtaggatcgttgtgcacatataaacaaaacaaaatagaaatttaagaggaaaccctcccaaaaaaaatacgactatcaattatgagtgattttacagttcttgaggaggtacaatgatacattttctattttaaaattcagtaactttgatactatgaggtacagaaatttgcacaaaaaaaatttggtacctctcaagtacttaaaatatcttatcaattatatttcagcaatgttgtcgttgctcgagttgtgcaaaaacatttctgatgaacaagtggagatgtatgcatatttagagagggaaacacatgcattttttaatatacattctcatgacaaattttggtgttctcgtctcattttagtctagcttagattaatggcatccatatattggtgaactgaaacagattgtatatgtccagtcttgaacaaacttcattatacaatgcataatcagaaaagatacagacatatattggcagatcacataaagtggtgtatctatgattgggtggtattttggacatacaaagtctactggtccctcatttgttaacagcatacatttgttcctatcaagacaaaagcactttacaacagtttggtagtaagttggtgttatgtgcgtgtctatttagatagagtggtagtaaaggaaggacactttttcttgatataccaaaatcacacataaaaaagaagtgtcattttcatgatcaacatgtggggtatgaacaaaaatgttctcccccctccaaccaacattgaagtcatcacacataaaaagcaaaaacatttaacaataatacatgcagacacatgtgcatgcatgtgtggatcacgcaaggacatactaattcaattaggtattcacaattaattagtgcaggaaatgacatgtaattacaattatatatgcacaacgatccttgtgtatttgtgtgacccattgtagtagcatttgattcctttcttgtgcctttctctacattgaattcgatctttgccaacagcggcttgctgatgagctcctgtgccattgcactgctgagctgcaccaaacagggacatcttttaagagcttgttgcctggaaatgatccatgtaaccaactgttcaggaagagcacactgtttgctgctcactttagctaaagcaaaactgtgtgcattatgcaatgcatatgcatccttccatctacccctgtgtcctttgccccccaaactgtgtaactacagtttaccatgcacatacatacaatgcacatctacccaattgtagcattgttgcaaggcctacttcagaattcagttagtccccaattgatccaactgcacacatatacatttacatatacatatacacaaacataccagcttggagaaaaggttgtaacaactttgctaaatgtgagatgtgtaatgtgtgttcttcctcttttcagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggtatatatccttacattgttcaaagcttctttcgattcctagctaactgcatatccatgcagaaattcattagctcgcattcattctgaacatgatgtctgaaactctgaattttttttcgtttgtgcgtgtttcagaacttggaaccgtgcagatcgagcagctcgcaggtgtccaaccatgagctgagtagccctagtctcgagttcactctagggaggcctgactggcacggtgcagatcatgattagatggcaatcacagaggctaatgatcaaaaaaaaatttctcctgagatgtgaaatatatatgtgatatacaccaacctggtgctgatcatctttcgccaaccccagcttagccagagccagttcgtctgaagcttgtcatggcgaagaatgatcagcagcaatggcttgaaacgcacatcatatccactgcgtcgtcgtcatcgtcgtcgcaatcgatcggagaagagatatatatttcgcgtctcgatctcatcatcacaatttgggttttcttgattccttcttcttcttctttttgcaattaatatcatggatgcagctagagtttccttgtctgatctccatatttatttagttttgttcgccgtgccgggatcgatttacagtgtagttcagtggtgagctagctagctagagagtgagtgagtgagtgtcagctaggcagctggagatcgagagtgtgagtttggtgatgagttggttgtgtgtttgtcagtgtgtgtgaaagtgtgtgtgccattagcacatggaaagttggaaaggagagaaaggaagaaagaaaagggaattgagttcaggtgaagcaatctgccaatctatctagctacctatctatccatctacttagctcagttgctcagatgatgatctcagatttccatggcccttttttgtgtgcatgcatgccgcatatgcttctttctttaatccctgcaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069632.1 RefSeq:Os09g0395300]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0395300

2014-05-30T11:15:14Z

Chenyaping:

The rice ''SHALLOT-LIKE1'' ('' SLL1'') gene, a member of KANADI family, is a key gene controlling rice leaf rolling.

==Annotated Information==
===Function===
[[File:ZhangF1.jpg|right|thumb|200px|Fig 1.''sll1'' has extremely incurved leaves, with deficiency of sclerenchymatous cells at the abaxial side <ref name="ref1" />.]] [[File:ZhangF2.jpg|right|thumb|200px|Fig 2. ''SLL1'' deficiency results in increased chlorophyll content <ref name="ref1" />.]]

''sll1'', a rice mutant with shallot-like Leaves, displays abnormal sclerenchymatous cell development in the abaxial cell layers, altered mesophyll cell distribution, increased amounts of chlorophyll, and enhanced photosynthesis (Fig. 1&2) <ref name="ref1" />.

===Expression===
[[File:ZhangF5.jpg|right|thumb|200px|Fig 5. ''SLL1'' Expression Pattern Analysis <ref name="ref1" />.]]

Quantitative real-time RT-PCR (qRT-PCR) analysis revealed the expression of ''SLL1'' in various tissues, including roots, stems, leaves, flowers, and seedlings, with relatively high expression in leaf and seedlings (Figure 5A , top panel). With an emphasis on the leaf, analysis by qRT-PCR showed that ''SLL1'' is ubiquitously expressed in shoot apical meristem (SAM), leaf blade, or leaf sheath at different developmental stages (Figure 5A, bottom panel).

To assess the expression pattern comprehensively, β-glucuronidase (GUS) activity was examined histochemically in transgenic plants carrying an ''SLL1'' promoter-GUS reporter gene. Results showed that ''SLL1'' was transcribed in stem (Figure 5B, panels 1 and 2), anthers of young or mature flowers (Figure 5B, panels 3 to 5), pistil tip (Figure 5B, panel 6), glume (Figure 5B, panel 7), vascular tissues of mature seeds (Figure 5B, panels 8 and 9), coleoptile and embryonic root of germinating seedlings (Figure 5B, panel 10), and root vascular tissues (Figure 5B, panel 11). In addition, ''SLL1'' is highly transcribed in leaf veins and leaf sheath (Figure 5C, panels 1 to 3), guard cells, and tracheal elements (Figure 5C, panels 4 and 5).

The spatial and temporal localization of ''SLL1'' during leaf development was further examined by in situ hybridization analysis. The mRNA expression of ''SLL1'' was detected throughout the young leaf primordium (plastochrons 1 to 3) and was more intense in abaxial cell layer through leaf development (plastochrons 4 and 5) (Figure 5D, panel 2). However, the ''SLL1'' transcript did not demonstrate apical/basal polarity and did not accumulate at the apex of the meristem (Figure 5D, panel 3). Cross-section analysis of the shoot apex showed that ''SLL1'' was more highly expressed in the abaxial cell layer, including the epidermis and vasculature of the early leaf blade (Figure 5D, panels 5 and 6). In the mature leaf, ''SLL1'' mainly accumulated at the abaxial epidermis, abaxial mesophyll cells, and vasculature (Figure 5D, panels 8 and 9). In contrast with the sense probe (Figure 5D, panels 4 and 7), ''SLL1'' was transcribed at a relatively low level throughout other leaf positions including the adaxial epidermis (Figure 5D, panels 5 and 6).

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
*State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, Zhejiang, China
*National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China

==References==
<references>
<ref name="ref1">Zhang GH, et al. (2009) ''SHALLOT-LIKE1'' is a KANADI transcription factor that modulates rice leaf rolling by regulating leaf abaxial cell development. The Plant Cell Online 21: 719-735.</ref>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0395300|
Description = Similar to CDPK substrate protein 1|
Version = NM_001069632.1 GI:115479006 GeneID:4346973|
Length = 7672 bp|
Definition = Oryza sativa Japonica Group Os09g0395300, 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 9|Chromosome 9]]|
AP = Chromosome 9:14411926..14419597|
CDS = 14411926..14412128,14413047..14413888,14413990..14414066,14414656..14414701,14414841..14415084 ,14418440..14418512,14419481..14419597|
GCID = <gbrowseImage1>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</cdnaseq>|
AA = <aaseq>MAMVRELELMTSWSNSMGRHRYPTRILVDSFGHKCSASDKGVWT SCSIRAPLQGRGSFRRGANIRFGSLPSSAAVATSGGGRGGGGVVVGGGGGDPWRRLDG STASTELSLSPPPAQAAGGGGGGGGADALPWRHRPSPPSSAVATTSAAAAAALMAPMM LQPLDAGGGASAPPPPIRGIPIYNGPGGFPFLQPSPTAGDVGHHHHHHPKMGFYSSYH HPSTWPSTSPSPLAAPPGAASSPLDPTAAFLSSPHHRMLSAASGRLNGMLSVSDTLRS YGVPGAAAPGVIGGAHHHHHHLHGGQPFVGALASRFMPKLPAKRSMRAPRMRWTSTLH ARFVHAVELLGGHERATPKSVLELMDVKDLTLAHVKSHLQMYRTVKSTDKPAASSGPA DGGSGDEEFAGGGQAASGGGDSMCLRGGGGGGVAAAAFAEHGRSASEGAASSVGGGGG GDMDQSSAGNTSTTRWSNSSRDPWLSSNSCNMDAHRSVGLSSPIEVLALPLASLIMSD TAYLFFSSNHGRCEPASLDQKLADI</aaseq>|
DNA = <dnaseqindica>1..203#1122..1963#2065..2141#2731..2776#2916..3159#6515..6587#7556..7672#atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggaggtatgagactacgctccatggtggagcgttgggcgtgaccttagtgtgcgcatatgtaagctgtatgcgtacgtataaatgttgagcttgcagtacatgtatacttgtttttttcttcttttttatgaggtcctttaattccattgtctgtattatttatgctagtatggaggatgatggtggcagtgacataaagtatacaaaaagcatagtatagtatacgtatggaaacaaaagcatgctacctttgactccacttgcattgcctgctaactgccattatttaaggaatacatggttgaatgcctgcctaaacatcaagataacctcacattctcctctctctctctcctaccttgcaattaagggtagcagcagtactctcctcactgctggctgactgctcccattttctctctctactctctctctctctctctcctctattccttttatacttgttgttggtagctaggagtatagcaggacagcacaaggaaccaattcatgcatatatccctggtgtctctcatgcatgttagtgtgaagaaagaagaagcttgagagagaagagagagttagagagagaaagtagagtgtttgtagagagagaaagtggtgtgtgtactagtagtaactccaagccagtgctagagacagagatacaaaaaggagacatcatccttctcttggccaaagcaagcaaccaagcaaagcttcctcttcttctccaagaactccaagaaccttctccttcatcttctccaccatgattccttccatcgcatgagctccatctccggcgtgtcgatcgagatcaccgttgctgctgccgaggtggagaaggaggtgtttgatcgatcggtcgatggaggcgagctcggcggcgacgccaccggacctgtcgctgcacatcagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagtacgcccccgccatcatcgtcgtcgtcctcctcctccttctcaccaccatcatcaacgagctcgatcaatctgatgagaatccaatcttgttcttggcaggggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccaggtatcccgccattgccgaccaattctcacagctcgatcgatcgatcaaacaccactcaccactgcaccatctctctctttctctctctcgatttcgattccattcagcttctgttcttgatcatcttgtttgggtgagacaaagatgccaatgcagtaactcctgagttagtgaagaaactgccattcttgggagcagagagagagagtgtgtgtgtgacatgtttggggatgtgtgtgcaagagagaagagagagagagaggggaaaaaagttgccatcattacacaataatgcattgcatctgcatctgtgctactagctccttccttagctctagtcatactagcgtatatgtgcacggcccaaagcactctcacacacaaacacaagagagagagagagagagagaagaagaagatgagagatgagagagagtaggacatattttgtgtgtgtttctttgctgcttgtcttttgcaatggcttcaacctcctggtttcattttgatctcacaaaaaatgtgtgtgtgtgtgtaaatatatatattgatcttctttttgttggacttttgtgttttattactgcagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcaggtgattttttttaccatggcagctactagtagtagtagtagtagctaatttagctaagctccattttgcttttctttttttttggcgttgtgcattgcgttttacattacattgttgctatggtttttttgacgtgtagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaaggtacacacatggcagagttgcatttcaagtctttcagattaattatatatctacattgttatgccatctttaattaattaaaaatgaaattaatcaatcagaatgtcatgagatgatgatgatgatgataataatactaggataggaagaggatgatatgatggatgggtgtgctatgtgtgtttttaagtgtgttttagcttagaaccaaaggcaacaccaacaaactttggcatgcattgatgatgtatctaaatatgagttagtgacatgcaaaattaacctgccaagtacaacctctatttattaattcccaaaaaaatctcatggaggagaagggagagagagagatagtagtaatgtgtggtgatgcatggctaaaaaagcttagcaaaagaatgttttgggggcacacacacacacacctggagagggagttgcctatgtttaggtggccaatgttgttatgtcacacaaaagaccaaaaagtcacacaccccatggcttggcctcctcctccccccttgacctgtgcagttagctaggcttcttctcttctctccctctgtgtttggtttttgtggagctaaaaacattttaaaaatcttgcaaacattgtgtgtaaaaataggttcttgggctctgcccattgtcctctagcttctctcaaatctctctctctctctctctctctctctctctctttctcaaacctagggaggggagggttactcaggcagggctccattatcatttcttatcaatgcatggctctgattccagggggatggggctttgacctgacatgccctattgcctaggaatatgtaaccaaggacttgctgcattcttggttctttctccctctctcaccagtctcttcaatgcccttttcttccacctcttgggcaattattagcatggatggagctcaccttttcactctaccctctagctgtgattaaatcattgactaatcctaattcataaatataagggattcaactatgtaactagatgtactagatcctagtattactagtgtgttttgattctgttaggaggagtgattagcgtttgtcgtaagtactagtattaaactataggggattagtgtagatcatttttttaaaaattagtgagtgtgcttgggcagattttactccagccattggcgtgaaaactttgatctttgggcagcttggaagcaagtacagttcaacctgtccttggctgcattcgctgctttttctttctcaggactcactgcaactttcttgccatccccaacacctccctttcggtcgtgtttgatcagttgcattgctggtttcttcgccgctttaatttctccatctttcttctgttccttattggctaagtaaaaaatcattctcagcaatcaagttttgaaattcaaattagcttcaggttttatctatctaataattctctgactagttctctttctttcaagacctgttcttgttcagaactcttatgcagttgagagttcagttgttcatggaagtaatggcaatgcctggtctagtctttgagcagtatcctccttatgctcttgattttccttcactttagccgtttcagtcaaactttggggacaaattaaagtcagctggtcaagtgcatacataccacgtcatattttttagatgaatccattgtagtattaaatactagtgacaaaaaaatataactaaatggcattaaattgcaaccttcttccccaaaataattgggcacaactaccttgcttgcatatgctttatagtactcctacttattacttccttgaatccatgaggattccaggaatttggtcaggtcaaatgtccaggaggaattaggctatctttttttatcttcttctttttcttctaggtagtaggatcgttgtgcacatataaacaaaacaaaatagaaatttaagaggaaaccctcccaaaaaaaatacgactatcaattatgagtgattttacagttcttgaggaggtacaatgatacattttctattttaaaattcagtaactttgatactatgaggtacagaaatttgcacaaaaaaaatttggtacctctcaagtacttaaaatatcttatcaattatatttcagcaatgttgtcgttgctcgagttgtgcaaaaacatttctgatgaacaagtggagatgtatgcatatttagagagggaaacacatgcattttttaatatacattctcatgacaaattttggtgttctcgtctcattttagtctagcttagattaatggcatccatatattggtgaactgaaacagattgtatatgtccagtcttgaacaaacttcattatacaatgcataatcagaaaagatacagacatatattggcagatcacataaagtggtgtatctatgattgggtggtattttggacatacaaagtctactggtccctcatttgttaacagcatacatttgttcctatcaagacaaaagcactttacaacagtttggtagtaagttggtgttatgtgcgtgtctatttagatagagtggtagtaaaggaaggacactttttcttgatataccaaaatcacacataaaaaagaagtgtcattttcatgatcaacatgtggggtatgaacaaaaatgttctcccccctccaaccaacattgaagtcatcacacataaaaagcaaaaacatttaacaataatacatgcagacacatgtgcatgcatgtgtggatcacgcaaggacatactaattcaattaggtattcacaattaattagtgcaggaaatgacatgtaattacaattatatatgcacaacgatccttgtgtatttgtgtgacccattgtagtagcatttgattcctttcttgtgcctttctctacattgaattcgatctttgccaacagcggcttgctgatgagctcctgtgccattgcactgctgagctgcaccaaacagggacatcttttaagagcttgttgcctggaaatgatccatgtaaccaactgttcaggaagagcacactgtttgctgctcactttagctaaagcaaaactgtgtgcattatgcaatgcatatgcatccttccatctacccctgtgtcctttgccccccaaactgtgtaactacagtttaccatgcacatacatacaatgcacatctacccaattgtagcattgttgcaaggcctacttcagaattcagttagtccccaattgatccaactgcacacatatacatttacatatacatatacacaaacataccagcttggagaaaaggttgtaacaactttgctaaatgtgagatgtgtaatgtgtgttcttcctcttttcagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggtatatatccttacattgttcaaagcttctttcgattcctagctaactgcatatccatgcagaaattcattagctcgcattcattctgaacatgatgtctgaaactctgaattttttttcgtttgtgcgtgtttcagaacttggaaccgtgcagatcgagcagctcgcaggtgtccaaccatgagctgagtagccctagtctcgagttcactctagggaggcctgactggcacggtgcagatcatgattagatggcaatcacagaggctaatgatcaaaaaaaaatttctcctgagatgtgaaatatatatgtgatatacaccaacctggtgctgatcatctttcgccaaccccagcttagccagagccagttcgtctgaagcttgtcatggcgaagaatgatcagcagcaatggcttgaaacgcacatcatatccactgcgtcgtcgtcatcgtcgtcgcaatcgatcggagaagagatatatatttcgcgtctcgatctcatcatcacaatttgggttttcttgattccttcttcttcttctttttgcaattaatatcatggatgcagctagagtttccttgtctgatctccatatttatttagttttgttcgccgtgccgggatcgatttacagtgtagttcagtggtgagctagctagctagagagtgagtgagtgagtgtcagctaggcagctggagatcgagagtgtgagtttggtgatgagttggttgtgtgtttgtcagtgtgtgtgaaagtgtgtgtgccattagcacatggaaagttggaaaggagagaaaggaagaaagaaaagggaattgagttcaggtgaagcaatctgccaatctatctagctacctatctatccatctacttagctcagttgctcagatgatgatctcagatttccatggcccttttttgtgtgcatgcatgccgcatatgcttctttctttaatccctgcaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069632.1 RefSeq:Os09g0395300]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0395300

2014-05-30T11:03:14Z

Chenyaping:

The rice ''SHALLOT-LIKE1'' ('' SLL1'') gene, a member of KANADI family, is a key gene controlling rice leaf rolling.

==Annotated Information==
===Function===
[[File:ZhangF1.jpg|right|thumb|200px|Fig 1.''sll1'' has extremely incurved leaves, with deficiency of sclerenchymatous cells at the abaxial side <ref name=''ref1'' />.]] [[File:ZhangF2.jpg|right|thumb|200px|Fig 2. ''SLL1'' deficiency results in increased chlorophyll content <ref name=''ref1'' />.]]

''sll1'', a rice mutant with shallot-like Leaves, displays abnormal sclerenchymatous cell development in the abaxial cell layers, altered mesophyll cell distribution, increased amounts of chlorophyll, and enhanced photosynthesis (Fig. 1&2) <ref name=''ref1'' />.

===Expression===
[[File:ZhangF5.jpg|right|thumb|200px|Fig 5. ''SLL1'' Expression Pattern Analysis <ref name=''ref1'' />.]]

Quantitative real-time RT-PCR (qRT-PCR) analysis revealed the expression of ''SLL1'' in various tissues, including roots, stems, leaves, flowers, and seedlings, with relatively high expression in leaf and seedlings (Figure 5A , top panel). With an emphasis on the leaf, analysis by qRT-PCR showed that ''SLL1'' is ubiquitously expressed in shoot apical meristem (SAM), leaf blade, or leaf sheath at different developmental stages (Figure 5A, bottom panel).

To assess the expression pattern comprehensively, β-glucuronidase (GUS) activity was examined histochemically in transgenic plants carrying an ''SLL1'' promoter-GUS reporter gene. Results showed that ''SLL1'' was transcribed in stem (Figure 5B, panels 1 and 2), anthers of young or mature flowers (Figure 5B, panels 3 to 5), pistil tip (Figure 5B, panel 6), glume (Figure 5B, panel 7), vascular tissues of mature seeds (Figure 5B, panels 8 and 9), coleoptile and embryonic root of germinating seedlings (Figure 5B, panel 10), and root vascular tissues (Figure 5B, panel 11). In addition, ''SLL1'' is highly transcribed in leaf veins and leaf sheath (Figure 5C, panels 1 to 3), guard cells, and tracheal elements (Figure 5C, panels 4 and 5).

The spatial and temporal localization of ''SLL1'' during leaf development was further examined by in situ hybridization analysis. The mRNA expression of ''SLL1'' was detected throughout the young leaf primordium (plastochrons 1 to 3) and was more intense in abaxial cell layer through leaf development (plastochrons 4 and 5) (Figure 5D, panel 2). However, the ''SLL1'' transcript did not demonstrate apical/basal polarity and did not accumulate at the apex of the meristem (Figure 5D, panel 3). Cross-section analysis of the shoot apex showed that ''SLL1'' was more highly expressed in the abaxial cell layer, including the epidermis and vasculature of the early leaf blade (Figure 5D, panels 5 and 6). In the mature leaf, ''SLL1'' mainly accumulated at the abaxial epidermis, abaxial mesophyll cells, and vasculature (Figure 5D, panels 8 and 9). In contrast with the sense probe (Figure 5D, panels 4 and 7), ''SLL1'' was transcribed at a relatively low level throughout other leaf positions including the adaxial epidermis (Figure 5D, panels 5 and 6).

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
*State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, Zhejiang, China
*National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China

==References==
<references>
<ref name="ref1">Zhang GH, et al. (2009) ''SHALLOT-LIKE1''is a KANADI transcription factor that modulates rice leaf rolling by regulating leaf abaxial cell development. The Plant Cell Online 21: 719-735.</ref>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0395300|
Description = Similar to CDPK substrate protein 1|
Version = NM_001069632.1 GI:115479006 GeneID:4346973|
Length = 7672 bp|
Definition = Oryza sativa Japonica Group Os09g0395300, 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 9|Chromosome 9]]|
AP = Chromosome 9:14411926..14419597|
CDS = 14411926..14412128,14413047..14413888,14413990..14414066,14414656..14414701,14414841..14415084 ,14418440..14418512,14419481..14419597|
GCID = <gbrowseImage1>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</cdnaseq>|
AA = <aaseq>MAMVRELELMTSWSNSMGRHRYPTRILVDSFGHKCSASDKGVWT SCSIRAPLQGRGSFRRGANIRFGSLPSSAAVATSGGGRGGGGVVVGGGGGDPWRRLDG STASTELSLSPPPAQAAGGGGGGGGADALPWRHRPSPPSSAVATTSAAAAAALMAPMM LQPLDAGGGASAPPPPIRGIPIYNGPGGFPFLQPSPTAGDVGHHHHHHPKMGFYSSYH HPSTWPSTSPSPLAAPPGAASSPLDPTAAFLSSPHHRMLSAASGRLNGMLSVSDTLRS YGVPGAAAPGVIGGAHHHHHHLHGGQPFVGALASRFMPKLPAKRSMRAPRMRWTSTLH ARFVHAVELLGGHERATPKSVLELMDVKDLTLAHVKSHLQMYRTVKSTDKPAASSGPA DGGSGDEEFAGGGQAASGGGDSMCLRGGGGGGVAAAAFAEHGRSASEGAASSVGGGGG GDMDQSSAGNTSTTRWSNSSRDPWLSSNSCNMDAHRSVGLSSPIEVLALPLASLIMSD TAYLFFSSNHGRCEPASLDQKLADI</aaseq>|
DNA = <dnaseqindica>1..203#1122..1963#2065..2141#2731..2776#2916..3159#6515..6587#7556..7672#atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggaggtatgagactacgctccatggtggagcgttgggcgtgaccttagtgtgcgcatatgtaagctgtatgcgtacgtataaatgttgagcttgcagtacatgtatacttgtttttttcttcttttttatgaggtcctttaattccattgtctgtattatttatgctagtatggaggatgatggtggcagtgacataaagtatacaaaaagcatagtatagtatacgtatggaaacaaaagcatgctacctttgactccacttgcattgcctgctaactgccattatttaaggaatacatggttgaatgcctgcctaaacatcaagataacctcacattctcctctctctctctcctaccttgcaattaagggtagcagcagtactctcctcactgctggctgactgctcccattttctctctctactctctctctctctctctcctctattccttttatacttgttgttggtagctaggagtatagcaggacagcacaaggaaccaattcatgcatatatccctggtgtctctcatgcatgttagtgtgaagaaagaagaagcttgagagagaagagagagttagagagagaaagtagagtgtttgtagagagagaaagtggtgtgtgtactagtagtaactccaagccagtgctagagacagagatacaaaaaggagacatcatccttctcttggccaaagcaagcaaccaagcaaagcttcctcttcttctccaagaactccaagaaccttctccttcatcttctccaccatgattccttccatcgcatgagctccatctccggcgtgtcgatcgagatcaccgttgctgctgccgaggtggagaaggaggtgtttgatcgatcggtcgatggaggcgagctcggcggcgacgccaccggacctgtcgctgcacatcagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagtacgcccccgccatcatcgtcgtcgtcctcctcctccttctcaccaccatcatcaacgagctcgatcaatctgatgagaatccaatcttgttcttggcaggggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccaggtatcccgccattgccgaccaattctcacagctcgatcgatcgatcaaacaccactcaccactgcaccatctctctctttctctctctcgatttcgattccattcagcttctgttcttgatcatcttgtttgggtgagacaaagatgccaatgcagtaactcctgagttagtgaagaaactgccattcttgggagcagagagagagagtgtgtgtgtgacatgtttggggatgtgtgtgcaagagagaagagagagagagaggggaaaaaagttgccatcattacacaataatgcattgcatctgcatctgtgctactagctccttccttagctctagtcatactagcgtatatgtgcacggcccaaagcactctcacacacaaacacaagagagagagagagagagagaagaagaagatgagagatgagagagagtaggacatattttgtgtgtgtttctttgctgcttgtcttttgcaatggcttcaacctcctggtttcattttgatctcacaaaaaatgtgtgtgtgtgtgtaaatatatatattgatcttctttttgttggacttttgtgttttattactgcagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcaggtgattttttttaccatggcagctactagtagtagtagtagtagctaatttagctaagctccattttgcttttctttttttttggcgttgtgcattgcgttttacattacattgttgctatggtttttttgacgtgtagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaaggtacacacatggcagagttgcatttcaagtctttcagattaattatatatctacattgttatgccatctttaattaattaaaaatgaaattaatcaatcagaatgtcatgagatgatgatgatgatgataataatactaggataggaagaggatgatatgatggatgggtgtgctatgtgtgtttttaagtgtgttttagcttagaaccaaaggcaacaccaacaaactttggcatgcattgatgatgtatctaaatatgagttagtgacatgcaaaattaacctgccaagtacaacctctatttattaattcccaaaaaaatctcatggaggagaagggagagagagagatagtagtaatgtgtggtgatgcatggctaaaaaagcttagcaaaagaatgttttgggggcacacacacacacacctggagagggagttgcctatgtttaggtggccaatgttgttatgtcacacaaaagaccaaaaagtcacacaccccatggcttggcctcctcctccccccttgacctgtgcagttagctaggcttcttctcttctctccctctgtgtttggtttttgtggagctaaaaacattttaaaaatcttgcaaacattgtgtgtaaaaataggttcttgggctctgcccattgtcctctagcttctctcaaatctctctctctctctctctctctctctctctctttctcaaacctagggaggggagggttactcaggcagggctccattatcatttcttatcaatgcatggctctgattccagggggatggggctttgacctgacatgccctattgcctaggaatatgtaaccaaggacttgctgcattcttggttctttctccctctctcaccagtctcttcaatgcccttttcttccacctcttgggcaattattagcatggatggagctcaccttttcactctaccctctagctgtgattaaatcattgactaatcctaattcataaatataagggattcaactatgtaactagatgtactagatcctagtattactagtgtgttttgattctgttaggaggagtgattagcgtttgtcgtaagtactagtattaaactataggggattagtgtagatcatttttttaaaaattagtgagtgtgcttgggcagattttactccagccattggcgtgaaaactttgatctttgggcagcttggaagcaagtacagttcaacctgtccttggctgcattcgctgctttttctttctcaggactcactgcaactttcttgccatccccaacacctccctttcggtcgtgtttgatcagttgcattgctggtttcttcgccgctttaatttctccatctttcttctgttccttattggctaagtaaaaaatcattctcagcaatcaagttttgaaattcaaattagcttcaggttttatctatctaataattctctgactagttctctttctttcaagacctgttcttgttcagaactcttatgcagttgagagttcagttgttcatggaagtaatggcaatgcctggtctagtctttgagcagtatcctccttatgctcttgattttccttcactttagccgtttcagtcaaactttggggacaaattaaagtcagctggtcaagtgcatacataccacgtcatattttttagatgaatccattgtagtattaaatactagtgacaaaaaaatataactaaatggcattaaattgcaaccttcttccccaaaataattgggcacaactaccttgcttgcatatgctttatagtactcctacttattacttccttgaatccatgaggattccaggaatttggtcaggtcaaatgtccaggaggaattaggctatctttttttatcttcttctttttcttctaggtagtaggatcgttgtgcacatataaacaaaacaaaatagaaatttaagaggaaaccctcccaaaaaaaatacgactatcaattatgagtgattttacagttcttgaggaggtacaatgatacattttctattttaaaattcagtaactttgatactatgaggtacagaaatttgcacaaaaaaaatttggtacctctcaagtacttaaaatatcttatcaattatatttcagcaatgttgtcgttgctcgagttgtgcaaaaacatttctgatgaacaagtggagatgtatgcatatttagagagggaaacacatgcattttttaatatacattctcatgacaaattttggtgttctcgtctcattttagtctagcttagattaatggcatccatatattggtgaactgaaacagattgtatatgtccagtcttgaacaaacttcattatacaatgcataatcagaaaagatacagacatatattggcagatcacataaagtggtgtatctatgattgggtggtattttggacatacaaagtctactggtccctcatttgttaacagcatacatttgttcctatcaagacaaaagcactttacaacagtttggtagtaagttggtgttatgtgcgtgtctatttagatagagtggtagtaaaggaaggacactttttcttgatataccaaaatcacacataaaaaagaagtgtcattttcatgatcaacatgtggggtatgaacaaaaatgttctcccccctccaaccaacattgaagtcatcacacataaaaagcaaaaacatttaacaataatacatgcagacacatgtgcatgcatgtgtggatcacgcaaggacatactaattcaattaggtattcacaattaattagtgcaggaaatgacatgtaattacaattatatatgcacaacgatccttgtgtatttgtgtgacccattgtagtagcatttgattcctttcttgtgcctttctctacattgaattcgatctttgccaacagcggcttgctgatgagctcctgtgccattgcactgctgagctgcaccaaacagggacatcttttaagagcttgttgcctggaaatgatccatgtaaccaactgttcaggaagagcacactgtttgctgctcactttagctaaagcaaaactgtgtgcattatgcaatgcatatgcatccttccatctacccctgtgtcctttgccccccaaactgtgtaactacagtttaccatgcacatacatacaatgcacatctacccaattgtagcattgttgcaaggcctacttcagaattcagttagtccccaattgatccaactgcacacatatacatttacatatacatatacacaaacataccagcttggagaaaaggttgtaacaactttgctaaatgtgagatgtgtaatgtgtgttcttcctcttttcagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggtatatatccttacattgttcaaagcttctttcgattcctagctaactgcatatccatgcagaaattcattagctcgcattcattctgaacatgatgtctgaaactctgaattttttttcgtttgtgcgtgtttcagaacttggaaccgtgcagatcgagcagctcgcaggtgtccaaccatgagctgagtagccctagtctcgagttcactctagggaggcctgactggcacggtgcagatcatgattagatggcaatcacagaggctaatgatcaaaaaaaaatttctcctgagatgtgaaatatatatgtgatatacaccaacctggtgctgatcatctttcgccaaccccagcttagccagagccagttcgtctgaagcttgtcatggcgaagaatgatcagcagcaatggcttgaaacgcacatcatatccactgcgtcgtcgtcatcgtcgtcgcaatcgatcggagaagagatatatatttcgcgtctcgatctcatcatcacaatttgggttttcttgattccttcttcttcttctttttgcaattaatatcatggatgcagctagagtttccttgtctgatctccatatttatttagttttgttcgccgtgccgggatcgatttacagtgtagttcagtggtgagctagctagctagagagtgagtgagtgagtgtcagctaggcagctggagatcgagagtgtgagtttggtgatgagttggttgtgtgtttgtcagtgtgtgtgaaagtgtgtgtgccattagcacatggaaagttggaaaggagagaaaggaagaaagaaaagggaattgagttcaggtgaagcaatctgccaatctatctagctacctatctatccatctacttagctcagttgctcagatgatgatctcagatttccatggcccttttttgtgtgcatgcatgccgcatatgcttctttctttaatccctgcaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069632.1 RefSeq:Os09g0395300]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0395300

2014-05-30T11:02:11Z

Chenyaping:

The rice ''SHALLOT-LIKE1'' ('' SLL1'') gene, a member of KANADI family, is a key gene controlling rice leaf rolling.

==Annotated Information==
===Function===
[[File:ZhangF1.jpg|right|thumb|200px|Fig 1.''sll1'' has extremely incurved leaves, with deficiency of sclerenchymatous cells at the abaxial side <ref name=''ref1'' />.]] [[File:ZhangF2.jpg|right|thumb|200px|Fig 2. ''SLL1'' deficiency results in increased chlorophyll content <ref name=''ref1'' />.]]

''sll1'', a rice mutant with shallot-like Leaves, displays abnormal sclerenchymatous cell development in the abaxial cell layers, altered mesophyll cell distribution, increased amounts of chlorophyll, and enhanced photosynthesis (Fig. 1&2).

===Expression===
[[File:ZhangF5.jpg|right|thumb|200px|Fig 5. ''SLL1'' Expression Pattern Analysis <ref name=''ref1'' />.]]

Quantitative real-time RT-PCR (qRT-PCR) analysis revealed the expression of ''SLL1'' in various tissues, including roots, stems, leaves, flowers, and seedlings, with relatively high expression in leaf and seedlings (Figure 5A , top panel). With an emphasis on the leaf, analysis by qRT-PCR showed that ''SLL1'' is ubiquitously expressed in shoot apical meristem (SAM), leaf blade, or leaf sheath at different developmental stages (Figure 5A, bottom panel).

To assess the expression pattern comprehensively, β-glucuronidase (GUS) activity was examined histochemically in transgenic plants carrying an ''SLL1'' promoter-GUS reporter gene. Results showed that ''SLL1'' was transcribed in stem (Figure 5B, panels 1 and 2), anthers of young or mature flowers (Figure 5B, panels 3 to 5), pistil tip (Figure 5B, panel 6), glume (Figure 5B, panel 7), vascular tissues of mature seeds (Figure 5B, panels 8 and 9), coleoptile and embryonic root of germinating seedlings (Figure 5B, panel 10), and root vascular tissues (Figure 5B, panel 11). In addition, ''SLL1'' is highly transcribed in leaf veins and leaf sheath (Figure 5C, panels 1 to 3), guard cells, and tracheal elements (Figure 5C, panels 4 and 5).

The spatial and temporal localization of ''SLL1'' during leaf development was further examined by in situ hybridization analysis. The mRNA expression of ''SLL1'' was detected throughout the young leaf primordium (plastochrons 1 to 3) and was more intense in abaxial cell layer through leaf development (plastochrons 4 and 5) (Figure 5D, panel 2). However, the ''SLL1'' transcript did not demonstrate apical/basal polarity and did not accumulate at the apex of the meristem (Figure 5D, panel 3). Cross-section analysis of the shoot apex showed that ''SLL1'' was more highly expressed in the abaxial cell layer, including the epidermis and vasculature of the early leaf blade (Figure 5D, panels 5 and 6). In the mature leaf, ''SLL1'' mainly accumulated at the abaxial epidermis, abaxial mesophyll cells, and vasculature (Figure 5D, panels 8 and 9). In contrast with the sense probe (Figure 5D, panels 4 and 7), ''SLL1'' was transcribed at a relatively low level throughout other leaf positions including the adaxial epidermis (Figure 5D, panels 5 and 6).

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
*State Key Laboratory of Rice Biology, China National Rice Research Institute, Hangzhou 310006, Zhejiang, China
*National Key Laboratory of Plant Molecular Genetics, Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200032, China

==References==
<references>
<ref name="ref1">Zhang GH, et al. (2009) ''SHALLOT-LIKE1''is a KANADI transcription factor that modulates rice leaf rolling by regulating leaf abaxial cell development. The Plant Cell Online 21: 719-735.</ref>

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0395300|
Description = Similar to CDPK substrate protein 1|
Version = NM_001069632.1 GI:115479006 GeneID:4346973|
Length = 7672 bp|
Definition = Oryza sativa Japonica Group Os09g0395300, 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 9|Chromosome 9]]|
AP = Chromosome 9:14411926..14419597|
CDS = 14411926..14412128,14413047..14413888,14413990..14414066,14414656..14414701,14414841..14415084 ,14418440..14418512,14419481..14419597|
GCID = <gbrowseImage1>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:14411926..14419597
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</cdnaseq>|
AA = <aaseq>MAMVRELELMTSWSNSMGRHRYPTRILVDSFGHKCSASDKGVWT SCSIRAPLQGRGSFRRGANIRFGSLPSSAAVATSGGGRGGGGVVVGGGGGDPWRRLDG STASTELSLSPPPAQAAGGGGGGGGADALPWRHRPSPPSSAVATTSAAAAAALMAPMM LQPLDAGGGASAPPPPIRGIPIYNGPGGFPFLQPSPTAGDVGHHHHHHPKMGFYSSYH HPSTWPSTSPSPLAAPPGAASSPLDPTAAFLSSPHHRMLSAASGRLNGMLSVSDTLRS YGVPGAAAPGVIGGAHHHHHHLHGGQPFVGALASRFMPKLPAKRSMRAPRMRWTSTLH ARFVHAVELLGGHERATPKSVLELMDVKDLTLAHVKSHLQMYRTVKSTDKPAASSGPA DGGSGDEEFAGGGQAASGGGDSMCLRGGGGGGVAAAAFAEHGRSASEGAASSVGGGGG GDMDQSSAGNTSTTRWSNSSRDPWLSSNSCNMDAHRSVGLSSPIEVLALPLASLIMSD TAYLFFSSNHGRCEPASLDQKLADI</aaseq>|
DNA = <dnaseqindica>1..203#1122..1963#2065..2141#2731..2776#2916..3159#6515..6587#7556..7672#atggcaatggtgcgggagctcgagttgatgacgagctggagcaacagcatggggcgacaccgctacccaacgcgcatcctcgtcgattccttcgggcataagtgcagtgcctctgacaagggtgtgtggacctcctgcagcattcgcgcacccttgcaaggacgcggctccttccgacgtggcgcgaatattcgctttgggaggtatgagactacgctccatggtggagcgttgggcgtgaccttagtgtgcgcatatgtaagctgtatgcgtacgtataaatgttgagcttgcagtacatgtatacttgtttttttcttcttttttatgaggtcctttaattccattgtctgtattatttatgctagtatggaggatgatggtggcagtgacataaagtatacaaaaagcatagtatagtatacgtatggaaacaaaagcatgctacctttgactccacttgcattgcctgctaactgccattatttaaggaatacatggttgaatgcctgcctaaacatcaagataacctcacattctcctctctctctctcctaccttgcaattaagggtagcagcagtactctcctcactgctggctgactgctcccattttctctctctactctctctctctctctctcctctattccttttatacttgttgttggtagctaggagtatagcaggacagcacaaggaaccaattcatgcatatatccctggtgtctctcatgcatgttagtgtgaagaaagaagaagcttgagagagaagagagagttagagagagaaagtagagtgtttgtagagagagaaagtggtgtgtgtactagtagtaactccaagccagtgctagagacagagatacaaaaaggagacatcatccttctcttggccaaagcaagcaaccaagcaaagcttcctcttcttctccaagaactccaagaaccttctccttcatcttctccaccatgattccttccatcgcatgagctccatctccggcgtgtcgatcgagatcaccgttgctgctgccgaggtggagaaggaggtgtttgatcgatcggtcgatggaggcgagctcggcggcgacgccaccggacctgtcgctgcacatcagcttgccgagcagcgcggcggtggcgacgtcggggggagggcgtggcggcggcggggtggtggtgggaggaggaggaggggacccgtggcggaggctggatgggtccacggcgtcgacggagttgtcgctgtcgccgccgccggcgcaggcggcgggtgggggaggtggtggtggtggagcggacgcgctgccgtggcggcaccgaccttcgccgccgtcgtcggcggtggccaccacgtctgccgccgccgcggcggcgctgatggcgccgatgatgctgcagccgctcgacgccggcggcggcgcgtcggcgccgccgccgccgatccgcgggatacctatctacaacggccccggcgggttcccgttcctgcagccgtcgcccaccgccggcgacgtcggccaccaccaccaccaccaccccaagatgggattctacagctcgtaccaccacccatccacgtggccctccacgtcgccgtccccgctcgcggcgccgccgggcgccgcgtcgtcgccgctcgaccccacggcggcgttcctctcctccccccaccaccggatgctgtccgccgcctcggggaggctcaacggcatgctctccgtctccgacaccctccgcagctacggcgtccccggcgccgccgcccccggcgtcatcggcggcgcgcaccaccaccaccaccacctccacggcggccagccgttcgtcggcgccctcgcgtcccgcttcatgcccaagctccccgccaagcgcagcatgcgcgcgccgcgcatgcgctggacgagcaccctccacgcccgcttcgtccacgccgtcgagctcctcggcggccacgagagtacgcccccgccatcatcgtcgtcgtcctcctcctccttctcaccaccatcatcaacgagctcgatcaatctgatgagaatccaatcttgttcttggcaggggcgacgcccaagtcggtgctggagctcatggacgtcaaggatctgacgctagcgcatgtcaagagccacctccaggtatcccgccattgccgaccaattctcacagctcgatcgatcgatcaaacaccactcaccactgcaccatctctctctttctctctctcgatttcgattccattcagcttctgttcttgatcatcttgtttgggtgagacaaagatgccaatgcagtaactcctgagttagtgaagaaactgccattcttgggagcagagagagagagtgtgtgtgtgacatgtttggggatgtgtgtgcaagagagaagagagagagagaggggaaaaaagttgccatcattacacaataatgcattgcatctgcatctgtgctactagctccttccttagctctagtcatactagcgtatatgtgcacggcccaaagcactctcacacacaaacacaagagagagagagagagagagaagaagaagatgagagatgagagagagtaggacatattttgtgtgtgtttctttgctgcttgtcttttgcaatggcttcaacctcctggtttcattttgatctcacaaaaaatgtgtgtgtgtgtgtaaatatatatattgatcttctttttgttggacttttgtgttttattactgcagatgtatcgcaccgtgaagagcactgacaagcctgcagcctcttcaggtgattttttttaccatggcagctactagtagtagtagtagtagctaatttagctaagctccattttgcttttctttttttttggcgttgtgcattgcgttttacattacattgttgctatggtttttttgacgtgtagggccggcggacggcggctccggcgacgaggagttcgccggcggcgggcaggcggcgtcgggcggcggcgacagcatgtgcctgaggggtggcggcggcggcggggtggccgcggcggcgttcgcggagcacggccggtcggcgtcggagggcgccgccagctcggtcggcggcggcggcggcggcgacatggaccagtcgtcggccggcaacaccagcaccaccaggtggagcaactcctcaaggtacacacatggcagagttgcatttcaagtctttcagattaattatatatctacattgttatgccatctttaattaattaaaaatgaaattaatcaatcagaatgtcatgagatgatgatgatgatgataataatactaggataggaagaggatgatatgatggatgggtgtgctatgtgtgtttttaagtgtgttttagcttagaaccaaaggcaacaccaacaaactttggcatgcattgatgatgtatctaaatatgagttagtgacatgcaaaattaacctgccaagtacaacctctatttattaattcccaaaaaaatctcatggaggagaagggagagagagagatagtagtaatgtgtggtgatgcatggctaaaaaagcttagcaaaagaatgttttgggggcacacacacacacacctggagagggagttgcctatgtttaggtggccaatgttgttatgtcacacaaaagaccaaaaagtcacacaccccatggcttggcctcctcctccccccttgacctgtgcagttagctaggcttcttctcttctctccctctgtgtttggtttttgtggagctaaaaacattttaaaaatcttgcaaacattgtgtgtaaaaataggttcttgggctctgcccattgtcctctagcttctctcaaatctctctctctctctctctctctctctctctctttctcaaacctagggaggggagggttactcaggcagggctccattatcatttcttatcaatgcatggctctgattccagggggatggggctttgacctgacatgccctattgcctaggaatatgtaaccaaggacttgctgcattcttggttctttctccctctctcaccagtctcttcaatgcccttttcttccacctcttgggcaattattagcatggatggagctcaccttttcactctaccctctagctgtgattaaatcattgactaatcctaattcataaatataagggattcaactatgtaactagatgtactagatcctagtattactagtgtgttttgattctgttaggaggagtgattagcgtttgtcgtaagtactagtattaaactataggggattagtgtagatcatttttttaaaaattagtgagtgtgcttgggcagattttactccagccattggcgtgaaaactttgatctttgggcagcttggaagcaagtacagttcaacctgtccttggctgcattcgctgctttttctttctcaggactcactgcaactttcttgccatccccaacacctccctttcggtcgtgtttgatcagttgcattgctggtttcttcgccgctttaatttctccatctttcttctgttccttattggctaagtaaaaaatcattctcagcaatcaagttttgaaattcaaattagcttcaggttttatctatctaataattctctgactagttctctttctttcaagacctgttcttgttcagaactcttatgcagttgagagttcagttgttcatggaagtaatggcaatgcctggtctagtctttgagcagtatcctccttatgctcttgattttccttcactttagccgtttcagtcaaactttggggacaaattaaagtcagctggtcaagtgcatacataccacgtcatattttttagatgaatccattgtagtattaaatactagtgacaaaaaaatataactaaatggcattaaattgcaaccttcttccccaaaataattgggcacaactaccttgcttgcatatgctttatagtactcctacttattacttccttgaatccatgaggattccaggaatttggtcaggtcaaatgtccaggaggaattaggctatctttttttatcttcttctttttcttctaggtagtaggatcgttgtgcacatataaacaaaacaaaatagaaatttaagaggaaaccctcccaaaaaaaatacgactatcaattatgagtgattttacagttcttgaggaggtacaatgatacattttctattttaaaattcagtaactttgatactatgaggtacagaaatttgcacaaaaaaaatttggtacctctcaagtacttaaaatatcttatcaattatatttcagcaatgttgtcgttgctcgagttgtgcaaaaacatttctgatgaacaagtggagatgtatgcatatttagagagggaaacacatgcattttttaatatacattctcatgacaaattttggtgttctcgtctcattttagtctagcttagattaatggcatccatatattggtgaactgaaacagattgtatatgtccagtcttgaacaaacttcattatacaatgcataatcagaaaagatacagacatatattggcagatcacataaagtggtgtatctatgattgggtggtattttggacatacaaagtctactggtccctcatttgttaacagcatacatttgttcctatcaagacaaaagcactttacaacagtttggtagtaagttggtgttatgtgcgtgtctatttagatagagtggtagtaaaggaaggacactttttcttgatataccaaaatcacacataaaaaagaagtgtcattttcatgatcaacatgtggggtatgaacaaaaatgttctcccccctccaaccaacattgaagtcatcacacataaaaagcaaaaacatttaacaataatacatgcagacacatgtgcatgcatgtgtggatcacgcaaggacatactaattcaattaggtattcacaattaattagtgcaggaaatgacatgtaattacaattatatatgcacaacgatccttgtgtatttgtgtgacccattgtagtagcatttgattcctttcttgtgcctttctctacattgaattcgatctttgccaacagcggcttgctgatgagctcctgtgccattgcactgctgagctgcaccaaacagggacatcttttaagagcttgttgcctggaaatgatccatgtaaccaactgttcaggaagagcacactgtttgctgctcactttagctaaagcaaaactgtgtgcattatgcaatgcatatgcatccttccatctacccctgtgtcctttgccccccaaactgtgtaactacagtttaccatgcacatacatacaatgcacatctacccaattgtagcattgttgcaaggcctacttcagaattcagttagtccccaattgatccaactgcacacatatacatttacatatacatatacacaaacataccagcttggagaaaaggttgtaacaactttgctaaatgtgagatgtgtaatgtgtgttcttcctcttttcagggacccatggctgtcgtccaattcttgcaacatggacgcccatcgctccgtaggattgtcttctcctattgaggtatatatccttacattgttcaaagcttctttcgattcctagctaactgcatatccatgcagaaattcattagctcgcattcattctgaacatgatgtctgaaactctgaattttttttcgtttgtgcgtgtttcagaacttggaaccgtgcagatcgagcagctcgcaggtgtccaaccatgagctgagtagccctagtctcgagttcactctagggaggcctgactggcacggtgcagatcatgattagatggcaatcacagaggctaatgatcaaaaaaaaatttctcctgagatgtgaaatatatatgtgatatacaccaacctggtgctgatcatctttcgccaaccccagcttagccagagccagttcgtctgaagcttgtcatggcgaagaatgatcagcagcaatggcttgaaacgcacatcatatccactgcgtcgtcgtcatcgtcgtcgcaatcgatcggagaagagatatatatttcgcgtctcgatctcatcatcacaatttgggttttcttgattccttcttcttcttctttttgcaattaatatcatggatgcagctagagtttccttgtctgatctccatatttatttagttttgttcgccgtgccgggatcgatttacagtgtagttcagtggtgagctagctagctagagagtgagtgagtgagtgtcagctaggcagctggagatcgagagtgtgagtttggtgatgagttggttgtgtgtttgtcagtgtgtgtgaaagtgtgtgtgccattagcacatggaaagttggaaaggagagaaaggaagaaagaaaagggaattgagttcaggtgaagcaatctgccaatctatctagctacctatctatccatctacttagctcagttgctcagatgatgatctcagatttccatggcccttttttgtgtgcatgcatgccgcatatgcttctttctttaatccctgcaggttcttgcacttcctttagcctcattgatcatgtcagatactgcctacctgttcttttccagcaaccatggccggtgtgaaccggcctctcttgaccagaaactagcagatatctga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001069632.1 RefSeq:Os09g0395300]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os10g0478000

2014-05-30T03:11:38Z

Chenyaping:

The rice ''TAWAWA1'' (''TAW1'') gene, a member of ALOG family, was identified as a regulator of rice inflorescence architecture.

==Annotated Information==
===Function===
In the dominant gain-of-function mutant ''tawawa1-D'', the activity of the inflorescence meristem (IM) is extended and spikelet specification is delayed, resulting in prolonged branch formation and increased numbers of spikelets. In contrast, reductions in ''TAWAWA1'' (''TAW1'') activity cause precocious IM abortion and spikelet formation, resulting in the generation of small inflorescences. ''TAW1'' encodes a nuclear protein of unknown function and shows high levels of expression in the shoot apical meristem, the IM, and the branch meristem (BMs). ''TAW1'' expression disappears from incipient spikelet meristems (SMs). It is demonstrated that members of the ''SHORT VEGETATIVE PHASE'' subfamily of MADS-box genes function downstream of ''TAW1''.Thus, ''TAW1'' is proposed as a unique regulator of meristem activity in rice and regulates inflorescence development through the promotion of IM activity and suppression of the phase change to SM identity <ref name="ref1" />.

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

===Evolution===
Please input evolution information here.

You can also add sub-section(s) at will.

==Labs working on this gene==
*Graduate School of Agriculture and Life Sciences, The University of Tokyo, Yayoi, Bunkyo, Tokyo 113-8657, Japan

==References==
<references>
<ref name="ref1">Yoshida A, Sasao M, Yasuno N, et al. (2013) TAWAWA1, a regulator of rice inflorescence architecture, functions through the suppression of meristem phase transition. Proceedings of the National Academy of Sciences 110: 767-772.</ref>

==Structured Information==
{{JaponicaGene|
GeneName = Os10g0478000|
Description = Protein of unknown function DUF640 domain containing protein|
Version = NM_001189280.1 GI:297727690 GeneID:9266624|
Length = 1426 bp|
Definition = Oryza sativa Japonica Group Os10g0478000, 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 10|Chromosome 10]]|
AP = Chromosome 10:18345508..18346933|
CDS = 18345710..18346324|
GCID = <gbrowseImage1>
name=NC_008403:18345508..18346933
source=RiceChromosome10
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008403:18345508..18346933
source=RiceChromosome10
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggagttcgtggcgcacgcggcggcgccggacagcccgcactcggacagcggcggaggaggagggggaatggcgacgggggcgacgtcggcgtcggcggcgggggcgtcgccgagcaggtacgagtcgcagaagcggcgggactggaacacgttcgggcagtacctccgcaaccaccggccgccgctgtcgctggcgcggtgcagcggcgcgcacgtcctggagttcctccgctacctggaccagttcggcaagaccaaggtgcacgcgccggcgtgccccttcttcggccacccggcgccgccggcgccgtgcccgtgcccgcttcgccaggcgtggggcagcctcgacgccctcgtcggccgcctccgcgccgcctacgaggagaacggcggccgccccgagaacaaccccttcggcgcccgcgccgtccgcctctacctccgcgaggtccgcgagcaccaggcgcgcgcacgcggcgtcagctacgagaagaagaagcgcaagaagccaccccacccctcctccgccgccgccgcgcacgacgacgccgccaacggcgccctccaccaccaccaccacatgccgccgcctcctcccggcgccgccgcctga</cdnaseq>|
AA = <aaseq>MEFVAHAAAPDSPHSDSGGGGGGMATGATSASAAGASPSRYESQ KRRDWNTFGQYLRNHRPPLSLARCSGAHVLEFLRYLDQFGKTKVHAPACPFFGHPAPP APCPCPLRQAWGSLDALVGRLRAAYEENGGRPENNPFGARAVRLYLREVREHQARARG VSYEKKKRKKPPHPSSAAAAHDDAANGALHHHHHMPPPPPGAAA</aaseq>|
DNA = <dnaseqindica>610..1224#tatcggctccttctcgcccagcttttgctcacgtcacatcaccttccacctccacccctccactcgctcgctcgcttgcttgctccaattaatacctcttctccttctcccccagcaactagcttccttctccgcttttgcagctcgccgccgccgccgccgccgccgccgcgacacggcgcgcatatggtcgtcgtcgtcgtcgtcgtcgtcgctggagaagacgaagaaagatagtagacctgagctgggggggcggtgaattcgccggagagctagctaaggtgagtttcgttttcggtttcggtttcgatcgatttgttggtgcagatgcatctgggagctagagaactatttatagtggctgcggtgcggtgcggcgtcgccacgccgcgcacgcgctcgcccacgtcgcgcgcgcgcgggcgcgcgtccactctctctctctcttggaccactgcgcgcgcgggcgcgcgtcggcgtcgccacggcttctcaagaacgcgcgcgcgcgcactgattcccagatagatagatctatatctgttcgtcttcctcagctatggtgtggtggtggtggtggtgtttgtggtgttgtgcagatcgacgatggagttcgtggcgcacgcggcggcgccggacagcccgcactcggacagcggcggaggaggagggggaatggcgacgggggcgacgtcggcgtcggcggcgggggcgtcgccgagcaggtacgagtcgcagaagcggcgggactggaacacgttcgggcagtacctccgcaaccaccggccgccgctgtcgctggcgcggtgcagcggcgcgcacgtcctggagttcctccgctacctggaccagttcggcaagaccaaggtgcacgcgccggcgtgccccttcttcggccacccggcgccgccggcgccgtgcccgtgcccgcttcgccaggcgtggggcagcctcgacgccctcgtcggccgcctccgcgccgcctacgaggagaacggcggccgccccgagaacaaccccttcggcgcccgcgccgtccgcctctacctccgcgaggtccgcgagcaccaggcgcgcgcacgcggcgtcagctacgagaagaagaagcgcaagaagccaccccacccctcctccgccgccgccgcgcacgacgacgccgccaacggcgccctccaccaccaccaccacatgccgccgcctcctcccggcgccgccgcctgagccgagccgagcttgctccaagatcgccggaaaacgagctgctagcctcctacgcatgcactagttactccactccactccactccactatgatccctagctaggctgctcttgctactagcaaaactacggattaatctccatgcttgctactgctgctgctgctgctactgcatctaattaattaggttgattatttcct</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001189280.1 RefSeq:Os10g0478000]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 10]]
[[Category:Chromosome 10]]