RiceWiki - User contributions [en]

Os02g0656600

2014-05-28T01:46:57Z

Xiaopeiwu0509: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice<ref name="ref1" />.

===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C)<ref name="ref1" />.SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; <ref name="ref2" />), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1)<ref name="ref1" />.
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2)<ref name="ref1" />.
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus<ref name="ref3" /> , the TGN<ref name="ref4" /> and the PVC<ref name="ref5" /> . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data indicated that GPA3 is localized to various post-Golgi compartments irrespective of the cell types(Figure 4).
[[File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png|right|thumb|320px|'''Figure 4.''' ''Figure 4. Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.<ref name="ref1" />'']]

==Labs working on this gene==
*State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China
*National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China
*School of Life Sciences, Centre for Cell and Developmental Biology, Chinese University of Hong Kong, New Territories, Hong Kong 999077, China
*College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China

==References==
<references>
* <ref name="ref1">
Yulong Ren,Yihua Wang,Feng Liu,et al.GLUTELIN PRECURSOR ACCUMULATION3 Encodes a Regulator of Post-Golgi Vesicular Traffic Essential for
Vacuolar Protein Sorting in Rice Endosperm[J].Plant cell,2014,26: 410–425.
</ref>
* <ref name="ref2">
Takemoto, Y., Coughlan, S.J., Okita,et al.The rice mutant esp2 greatly
accumulates the glutelin precursor and deletes the protein disulfide
isomerase[J]. Plant Physiol,2002, 128: 1212–1222.
</ref>
* <ref name="ref3">
Tse, Y.C., Mo, B., Hillmer,et al.Identification of multivesicular bodies as
prevacuolar compartments in Nicotiana tabacum BY-2 cells[J]. Plant Cell,2004, 16: 672–693.
</ref>
* <ref name="ref4">
Lam, S.K., Siu, C.L., Hillmer,et al.Rice SCAMP1 defines clathrin-coated, trans-Golgi-located tubular-vesicular structures as an early endosome in
tobacco BY-2 cells[J]. Plant Cell ,2007b,19: 296–319.
</ref>
* <ref name="ref5">
Miao, Y., Yan, P.K., Kim, H.,et al.Localization of green fluorescent protein fusions with the seven Arabidopsis vacuolar sorting receptors to prevacuolar compartments in tobacco BY-2 cells[J].Plant Physiol,2006,142: 945–962.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

Os02g0656600

2014-05-28T01:34:19Z

Xiaopeiwu0509: /* Mutations */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice<ref name="ref1" />.

===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C)<ref name="ref1" />.SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; <ref name="ref2" />), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1)<ref name="ref1" />.
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2)<ref name="ref1" />.
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus<ref name="ref3" /> , the TGN<ref name="ref4" /> and the PVC<ref name="ref5" /> . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data indicated that GPA3 is localized to various post-Golgi compartments irrespective of the cell types(Figure 4).
[[File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png|right|thumb|320px|'''Figure 4.''' ''Figure 4. Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.<ref name="ref1" />'']]

==Labs working on this gene==
*State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China
*National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China
*School of Life Sciences, Centre for Cell and Developmental Biology, Chinese University of Hong Kong, New Territories, Hong Kong 999077, China
*College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

Os02g0656600

2014-05-28T01:33:05Z

Xiaopeiwu0509: /* Mutations */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice<ref name="ref1" />.

===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C)<ref name="ref1" />.SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; <ref name="ref1" />), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1)<ref name="ref1" />.
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2)<ref name="ref1" />.
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus<ref name="ref3" /> , the TGN<ref name="ref4" /> and the PVC<ref name="ref5" /> . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data indicated that GPA3 is localized to various post-Golgi compartments irrespective of the cell types(Figure 4).
[[File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png|right|thumb|320px|'''Figure 4.''' ''Figure 4. Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.<ref name="ref1" />'']]

==Labs working on this gene==
*State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China
*National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China
*School of Life Sciences, Centre for Cell and Developmental Biology, Chinese University of Hong Kong, New Territories, Hong Kong 999077, China
*College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

Os02g0656600

2014-05-27T14:59:26Z

Xiaopeiwu0509: /* Localization */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice<ref name="ref1" />.

===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C)<ref name="ref1" />.SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; Takemoto et al., 2002), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1)<ref name="ref1" />.
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2)<ref name="ref1" />.
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus<ref name="ref3" /> , the TGN<ref name="ref4" /> and the PVC<ref name="ref5" /> . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data indicated that GPA3 is localized to various post-Golgi compartments irrespective of the cell types(Figure 4).
[[File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png|right|thumb|320px|'''Figure 4.''' ''Figure 4. Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.<ref name="ref1" />'']]

==Labs working on this gene==
*State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China
*National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China
*School of Life Sciences, Centre for Cell and Developmental Biology, Chinese University of Hong Kong, New Territories, Hong Kong 999077, China
*College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

Os02g0656600

2014-05-27T14:43:12Z

Xiaopeiwu0509: /* Mutations */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice<ref name="ref1" />.

===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C)<ref name="ref1" />.SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; Takemoto et al., 2002), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1)<ref name="ref1" />.
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2)<ref name="ref1" />.
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus , the TGN and the PVC . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data indicated that GPA3 is localized to various post-Golgi compartments irrespective of the cell types(Figure 4).
[[File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png|right|thumb|320px|'''Figure 4.''' ''Figure 4. Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.<ref name="ref1" />'']]

==Labs working on this gene==
*State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China
*National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China
*School of Life Sciences, Centre for Cell and Developmental Biology, Chinese University of Hong Kong, New Territories, Hong Kong 999077, China
*College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

Os02g0656600

2014-05-27T14:39:14Z

Xiaopeiwu0509: /* Function */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice<ref name="ref1" />.

===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C).SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; Takemoto et al., 2002), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1).
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2).
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus , the TGN and the PVC . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data indicated that GPA3 is localized to various post-Golgi compartments irrespective of the cell types(Figure 4).
[[File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png|right|thumb|320px|'''Figure 4.''' ''Figure 4. Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.<ref name="ref1" />'']]

==Labs working on this gene==
*State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China
*National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China
*School of Life Sciences, Centre for Cell and Developmental Biology, Chinese University of Hong Kong, New Territories, Hong Kong 999077, China
*College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

Os02g0656600

2014-05-27T09:17:52Z

Xiaopeiwu0509: /* Labs working on this gene */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice.
===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C).SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; Takemoto et al., 2002), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1).
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2).
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus , the TGN and the PVC . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data indicated that GPA3 is localized to various post-Golgi compartments irrespective of the cell types(Figure 4).
[[File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png|right|thumb|320px|'''Figure 4.''' ''Figure 4. Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.<ref name="ref1" />'']]

==Labs working on this gene==
*State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, China
*National Key Facility for Crop Gene Resources and Genetic Improvement, Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing 100081, China
*School of Life Sciences, Centre for Cell and Developmental Biology, Chinese University of Hong Kong, New Territories, Hong Kong 999077, China
*College of Life Sciences, Nanjing Agricultural University, Nanjing 210095, China

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png

2014-05-27T09:15:17Z

Xiaopeiwu0509: Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.

Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.

Os02g0656600

2014-05-27T09:13:29Z

Xiaopeiwu0509: /* Localization */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice.
===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C).SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; Takemoto et al., 2002), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1).
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2).
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus , the TGN and the PVC . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data indicated that GPA3 is localized to various post-Golgi compartments irrespective of the cell types(Figure 4).
[[File:Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.png|right|thumb|320px|'''Figure 4.''' ''Figure 4. Subcellular Localization of GPA3 in Arabidopsis Protoplasts and Developing Subaleurone Cells.<ref name="ref1" />'']]

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

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

Os02g0656600

2014-05-27T09:07:19Z

Xiaopeiwu0509: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
===Function===
GPA3 encodes a plant-specific kelch-repeat protein that is localized to
the trans-Golgi networks, DVs, and PSVs in the developing endosperm. In vitro and in vivo experiments verified that GPA3 directly interacts with the rice Rab5a-guanine exchange factor VPS9a and forms a regulatory complex with Rab5a via VPS9a.GPA3 acts synergistically with Rab5a and VPS9a to regulate DV-mediated post-Golgi traffic in rice.
===Mutations===
*Phenotypic Characterization of the gpa3 Mutant
The gpa3 plants exhibited no visible abnormalities before the grainfilling
stage, such as plant height, tiller number, and heading date.After fertilization, the gpa3 mutant exhibited a markedly slower grain-filling rate (Figure 1A) and eventually produced a shrunken and floury endosperm (Figure 1B),Scanning electron microscopy analysis revealed that the wild-type endosperm was filled with densely packed, polyhedral starch granules, but endosperm of the gpa3 mutant was packed with round, irregularly arranged compound starch granules (Figure 1C).SDS-PAGE and immunoblot analyses revealed that the accumulation of prolamins was comparable in the dry seeds of the wild type and the gpa3 mutant. However, the gpa3 mutant seeds exhibited increased accumulation of 57-kD proglutelins, accompanied by reduced accumulation of the mature acidic and basic subunits as well as a-globulins, compared with wild-type seeds
(Figures 1D and 1E),In addition, immunoblot analysis using isoform specific antibodies revealed increased accumulation of proglutelins for all glutelin subfamilies(GluA, GluB, and GluC; Takemoto et al., 2002), accompanied by decreased accumulation of their respective acidic subunits in the gpa3 mutant (Figure 1F), suggesting that a defect in a regulatory
factor rather than glutelin structural genes may be responsible for the gpa3 mutant phenotypes(Figure 1).
[[File:Figure 1.png|right|thumb|320px|'''Figure 1.''' ''Phenotypic Analyses of the gpa3 Mutant.<ref name="ref1" />'']]
*Abnormal Deposition of Glutelins and a-Globulins in the gpa3 Mutant
As shown in Figures 2A and 2B, Coomassie blue staining showed that the storage proteins were most abundant in the subaleurone layer of endosperm in both the wild type and the gpa3 mutant.numerous glutelin- and a-globulin–containing protein granules distributed near the cell periphery in the gpa3 mutant endosperm but not in wild-type endosperm (Figures 2C to 2F)(Figure 2).
[[File:the Wild Type and the gpa3 Mutant.png|right|thumb|320px|'''Figure2.''' ''Light and Immunofluorescence Microscopy Images of Protein Bodies in the Subaleurone Cells of the Wild Type and the gpa3 Mutant.<ref name="ref1" />'']]

===Expression===
the phenotypes of the gpa3 mutant were restricted to endosperm, GPA3 expression was detected in all tissues examined, including root, stem,
leaf, leaf sheath, panicle, and endosperm, with highest accumulation
in the leaf(Figure 3G).During endosperm development,the expression of GPA3 was low at an early stage, then peaked at;18 DAF, and slowly decreased after 21 DAF (Figure 3H).Thus,GPA3 encodes a plant-specific kelch-repeat
protein and that it is broadly expressed inmultiple organs and tissues.
[[File:the expression of GPA3.png|right|thumb|320px|'''Figure3.''' ''Expression Analysis of GPA3.<ref name="ref1" />'']]

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

===Localization===
To determine the subcellular localization of the GPA3 protein,P35S:GPA3-GFP was transiently expressedin Arabidopsis protoplasts.As expected, GFP itself was distributed evenly in the cytoplasm and the nucleus, whereas the GPA3-GFP fusion protein was mainly localized to the cytoplasm and to punctate compartments in the cytosol. Moreover,we observed colocalization of various combinations of GPA3 fused with either fluorescent protein (GFP or mCherry) or a Flag tag at the N terminus or C terminus in Arabidopsis protoplasts.To determine the nature of these punctate compartments, we coexpressed GPA3-GFP and fluorescent marker proteins characteristic for the Golgi apparatus , the TGN and the PVC . As shown in Figures 4A to 4C, the punctate compartments of GPA3-GFP were obviously distinct from the Golgi but partially overlapped with the TGN and PVC. Furthermore, correlation analysis using the Pearson-Spearman correlation (PSC) plugin for ImageJ revealed strong correlation between GPA3-GFP and the PVC marker , but the correlation between GPA3-GFP and the TGN marker appeared to be weaker.Furthermore, immunoelectron microscopy analysis with anti-GFP antibodies revealed that GPA3-GFP was targeted to the TGN, DVs, and PBIIs (Figure 4D). Together, these data
indicated that GPA3 is localized to various post-Golgi compartments
irrespective of the cell types(Figure 4).

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

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os02g0656600|
Description = Similar to Dehydration responsive element binding protein 2B (DREB2B protein)|
Version = NM_001054162.1 GI:115447694 GeneID:4330202|
Length = 1080 bp|
Definition = Oryza sativa Japonica Group Os02g0656600, 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 2|Chromosome 2]]|
AP = Chromosome 2:27411434..27412513|
CDS = 27411524..27412387|
GCID = <gbrowseImage1>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008395:27411434..27412513
source=RiceChromosome02
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaa</cdnaseq>|
AA = <aaseq>MEAAAIHAPTTTTSSDSGSCVTNGTREKREISKHKQLKRKRSTS PAPPPGCGGGQGQEAAVETDADAGAAGEEESSSCGGAGAGEGERKRGDAGRHPSYRGV RRRSWGKWVSEIREPRKKSRIWLGTFPTAEMAARAHDVAALAIKGRAAHLNFPSLAHT LPRPASTSPSDIQAAAALAAAAAATDQCESSSSAVAAATATDAEAAESTSSAAASPCA ATSSVEENALFDLPDLLLDLSDGLWCSPVWTTAPADQYDAGDDGDDAAAPLLWAEQCW MDAPAAPVQPD</aaseq>|
DNA = <dnaseqindica>91..954#cctggaaggaagcgcatctccttcctgcggtattctgtgtgcctctctctctctctctctcctccaccttgtcgtagagaggaggcggccatggaagctgccgcgatccatgcgcccaccaccaccacctcctccgactccggctcgtgcgtcaccaatggcacgcgagagaagcgcgagatctctaagcacaagcagctcaagcggaagaggagcacctctcctgctcctcctcccggctgcggcggcggccaaggacaggaagcggcggtggagactgacgctgacgctggcgccgccggcgaggaggagagcagcagctgcggtggcgctggcgccggcgagggcgagcgcaagaggggtgacgccggcaggcacccgtcgtaccgcggcgtgaggcggcggagctggggcaagtgggtgtcggagatccgcgagccgcgcaagaagtcgcgcatctggctcggcaccttcccgacggcggagatggccgcgcgcgcgcacgacgtggccgcgctcgccatcaagggccgcgccgcgcacctcaacttcccgagcctcgcccacacgctcccgcgcccggcctccacctcaccctccgacatccaggccgccgccgccctcgccgcagctgcagccgccaccgaccaatgcgagtcctcctcctctgccgtcgccgccgccaccgccaccgacgccgaggcggcggagtccacctcgtcggccgcggccagcccgtgcgccgccaccagcagcgtcgaggagaacgcgctgttcgacctgcccgaccttctcctcgacctgagcgacgggctctggtgctcacccgtctggacgacagcgccggccgatcagtacgacgccggcgacgacggcgacgacgccgcggcgccgctcctgtgggccgagcagtgctggatggacgccccagcggcgcccgtgcagcctgactaattaagccaatccacctgctccgactcgccggccggccattgcaccggttgggttggtcgcagcagtcaacctatcgacaccatgggcgtctttttcttttctctctgtttttttttcttttttgga</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001054162.1 RefSeq:Os02g0656600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 2]]
[[Category:Chromosome 2]]

File:The Wild Type and the gpa3 Mutant.png

2014-05-27T08:47:29Z

Xiaopeiwu0509: the Wild Type and the gpa3 Mutant

the Wild Type and the gpa3 Mutant

Os02g0656600

2014-05-27T08:45:50Z

Xiaopeiwu0509: /* Mutations */

File:The expression of GPA3.png

2014-05-27T08:43:38Z

Xiaopeiwu0509: Expression Analysis of GPA3.

Expression Analysis of GPA3.

Os02g0656600

2014-05-27T08:42:27Z

Xiaopeiwu0509: /* Expression */

File:Figure2.png

2014-05-27T08:26:17Z

Xiaopeiwu0509: uploaded a new version of "File:Figure2.png"

Os02g0656600

2014-05-27T08:25:04Z

Xiaopeiwu0509: /* Mutations */

File:Figure 2.png

2014-05-27T08:23:53Z

Xiaopeiwu0509: uploaded a new version of "File:Figure 2.png": Figure2.

Grain Length among between different plants

File:Figure 2.png

2014-05-27T08:19:55Z

Xiaopeiwu0509: uploaded a new version of "File:Figure 2.png"

Grain Length among between different plants

File:Figure 2.png

2014-05-27T08:18:48Z

Xiaopeiwu0509: uploaded a new version of "File:Figure 2.png"

Grain Length among between different plants

File:Figure 2.png

2014-05-27T08:17:17Z

Xiaopeiwu0509: uploaded a new version of "File:Figure 2.png"

Grain Length among between different plants

File:Figure 1.png

2014-05-27T08:14:26Z

Xiaopeiwu0509: uploaded a new version of "File:Figure 1.png"

Awn length comparion among different plants.

Os02g0656600

2014-05-27T08:10:29Z

Xiaopeiwu0509: /* Mutations */

Os02g0656600

2014-05-27T08:09:22Z

Xiaopeiwu0509: /* Mutations */

Os02g0656600

2014-05-27T08:08:40Z

Xiaopeiwu0509: /* Mutations */

Os02g0656600

2014-05-27T08:06:52Z

Xiaopeiwu0509: /* Mutations */

Os02g0656600

2014-05-27T08:00:29Z

Xiaopeiwu0509: /* Function */

Os02g0656600

2014-05-27T07:32:11Z

Xiaopeiwu0509: /* Function */

Os09g0561600

2014-05-25T10:10:14Z

Xiaopeiwu0509: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility<ref name="ref1" />. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect<ref name="ref1" />.

===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D)<ref name="ref1" />.
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation<ref name="ref1" />. Histochemical staining revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc)<ref name="ref1" />.
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A)<ref name="ref1" />. Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B)<ref name="ref1" />.Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane<ref name="ref1" />. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
<references>
* <ref name="ref1">
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T10:09:08Z

Xiaopeiwu0509: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility<ref name="ref1" />. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect<ref name="ref1" />.

===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D)<ref name="ref1" />.
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation<ref name="ref1" />. Histochemical staining revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc)<ref name="ref1" />.
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A)<ref name="ref1" />. Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B)<ref name="ref1" />.Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane<ref name="ref1" />. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T10:08:23Z

Xiaopeiwu0509: /* Localization */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility<ref name="ref1" />. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect<ref name="ref1" />.

===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D)<ref name="ref1" />.
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation<ref name="ref1" />. Histochemical staining revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc)<ref name="ref1" />.
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane<ref name="ref1" />. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T10:07:48Z

Xiaopeiwu0509: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility<ref name="ref1" />. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect<ref name="ref1" />.

===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D)<ref name="ref1" />.
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation<ref name="ref1" />. Histochemical staining revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc)<ref name="ref1" />.
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T10:06:23Z

Xiaopeiwu0509: /* The phenotype of OsDEES1 RNA interference plants */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility<ref name="ref1" />. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect<ref name="ref1" />.

===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D)<ref name="ref1" />.
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T10:05:49Z

Xiaopeiwu0509: /* Function */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility<ref name="ref1" />. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect<ref name="ref1" />.

===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T10:04:11Z

Xiaopeiwu0509: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T10:03:34Z

Xiaopeiwu0509: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
<references>
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T10:03:01Z

Xiaopeiwu0509: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
<references>
* <ref name="ref1">
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T09:59:41Z

Xiaopeiwu0509: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology,2012,160,696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T09:59:13Z

Xiaopeiwu0509: /* References */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Na Wang, Hui-Jia Huang, Su-Ting Ren,et al,.The Rice Wall-Associated Receptor-Like Kinase Gene OsDEES1 Plays a Role in Female Gametophyte Development[J].Plant Physiology�,2012,160, pp. 696–707,

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T09:56:35Z

Xiaopeiwu0509: /* Labs working on this gene */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
*Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T09:56:14Z

Xiaopeiwu0509: /* Labs working on this gene */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

==Labs working on this gene==
Hebei Key Laboratory of Molecular and Cellular Biology, College of Life Sciences, Hebei Normal University,Shijiazhuang 050016, China

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

File:Fig 3.png

2014-05-25T09:53:59Z

Xiaopeiwu0509: uploaded a new version of "File:Fig 3.png": Figure 3.

Phylogenetic tree of SEP genes in plants

Os09g0561600

2014-05-25T09:52:16Z

Xiaopeiwu0509: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
[[File:Fig 3.png|below|thumb|320px|'''Figure 3. Sequence analysis and subcellular localization of OsDEES1..''' ]]

==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

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

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T09:50:32Z

Xiaopeiwu0509: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).
==Localization==
The OsDEES1 gene product has a membranelocalizing signal peptide and is thus speculated to be a plasma membrane protein (http://cdna01.dna.
affrc.go.jp/cDNA/).YFP was ubiquitously localized in the cytoplasm, whereas OsDEES1DK-YFP was localized to the plasma membrane region in tobacco cells. In onion cells after plasmolysis, OsDEES1DK-YFP was detected in the plasma membrane region, in the cell wall (long arrow), and in thread-like structures (short arrow) between the cell wall and plasma membrane. The right-most images offer enlarged views of the circumscribed region(Fig.3C).

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

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T09:47:25Z

Xiaopeiwu0509: /* Evolution */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

===Evolution===
Online sequence analyses have shown that OsDEES1 possesses a typical receptor kinase structure, including an extracellular domain, a transmembrane domain,and an intracellular kinase domain (http://plantsp.
genomics.purdue.edu/feature_scan.html).the extracellular region of OsDEES1 has a signal peptide composed of 19 amino acids at the N terminus and two EGF repeat-like domains (EGF2 andEGF-Ca) near the transmembrane region. The typical ATP-binding motif and kinase active site can also be found in the intracellular domain (Fig. 3A). Phylogenetic tree analysis showed that OsDEES1 shares 41% identity with three Arabidopsis WAKs (AtWAK1, -2,and -4), whereas the three AtWAKs exhibited approximately 73% identity among themselves (Fig. 3B).Notably, compared with AtWAKs, OsDEES1 possesses an additional 42 amino acids in its extracellular domain but lacks 63 amino acids at its C terminus (Fig.3A).

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

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

File:Fig 2.png

2014-05-25T09:39:33Z

Xiaopeiwu0509: uploaded a new version of "File:Fig 2.png": Figure 2

Phenotype of pap2-1 in spikelet development

Os09g0561600

2014-05-25T09:37:23Z

Xiaopeiwu0509: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).
[[File:Fig 2.png|below|thumb|320px|'''Figure 2. OsDEES1 expression pattern in various plant tissues and immunolocalization in the ovary..''' ]]

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

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

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

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

Os09g0561600

2014-05-25T09:33:46Z

Xiaopeiwu0509: /* Expression */

Please input one-sentence summary here.

==Annotated Information==
===Function===

OsDEES1,a rice WAK-RLK gene,plays a role in rice sexual reproduction by regulating female gametophyte development.OsDEES1 silencing by RNA interference caused a high rate of female sterility. Crossing experiments showed that female reproductive organs lacking OsDEES1 carried a functional defect.
===The phenotype of OsDEES1 RNA interference plants===
the knockdown of OsDEES1 expression did not affect megasporogenesis
but that it disturbed female gametophyte formation, resulting in a degenerated embryo sac and defective seed formation.The RNAi transgenic
rice exhibited a near-normal morphology in terms of growth but a high rate of sterility (Fig. 1, A and B).Of 44 RNAi transgenic plants obtained over
three years (2005, 2006, and 2007), 33 had high rates of sterility (Fig. 1C).A semiquantitative reverse transcription (RT)-PCR assay revealed that the mRNA expression of endogenous OsDEES1 was significantly
down-regulated in our RNAi plants (Fig. 1D).
[[File:Fig 1.png|right|thumb|320px|'''Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.''' ]]

===Expression===
OsDEES1 exhibited a tissue-specific expression pattern in flowers and seedlings. In the ovary, OsDEES1 was expressed in the megagametophyte region and surrounding nucellus cells in the ovule near the micropylar region.OsDEES1pro::GUS construct was induced into rice plants by A. tumefaciensmediated callus transformation. Histochemical staining
revealed OsDEES1 expression in floral tissues(anthers, pistils, and lodicules) as well as in the coleoptile,node, and leaf tongue of seedlings, but not in the leaf blade or root(Fig. 2A).ovarian sections from OsDEES1pro::GUS transgenic plants were generated for immunohistochemical
analysis using anti-GUS antibodies. As shown in Figure2B, a strong GUS immunolocalization signal(brown) was detected in the ovule and lodicules (Fig.2Bb).In the enlarged image of the ovule, OsDEES1 expression can be seen in the megagametophyte region and surrounding nucellus cells near the micropyle (i.e.the area where the embryo sac formed and developed;Fig. 2Bc).

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

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

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

==References==
Please input cited references here.

==Structured Information==
{{JaponicaGene|
GeneName = Os09g0561600|
Description = EGF domain containing protein|
Version = NM_001070468.1 GI:115480678 GeneID:4347857|
Length = 2988 bp|
Definition = Oryza sativa Japonica Group Os09g0561600, 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 9:23147405..23150392|
CDS = 23147423..23148569,23149076..23150091|
GCID = <gbrowseImage1>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage1>|
GSID = <gbrowseImage2>
name=NC_008402:23147405..23150392
source=RiceChromosome09
preset=GeneLocation
</gbrowseImage2>|
CDNA = <cdnaseq>atggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtag</cdnaseq>|
AA = <aaseq>MAMAMAMALLLLLLLQLWSVEAQVAAPPPASCPDRCGDVSVPYP FGIRDGCHLPGFRLTCDATHTPPRLMLGNGTLQVVDISLANSTVRALDLAGAVNFTYD VSKLAPSGSGTWSSLGTVAGAGPYVVSEQRNRLVVTGCNVQATLAGENTNIIGGCSSF CPVSEMFTSVAATVPVVPGAGADNATDGGFICSGTSCCETPIAIGRPSYLVQFLSLDQ NQELTGKLPVAVRIAERGWFEGVAGELLNTSSDSAAALRTPVPVVLEWVVSPTLEAVL QGVTGQFADDRNWSCPADAARSACRSSNSFCSNVTGNYRRGYVCRCRRGYGGNPYVAG GCQDIDECKLAGRCYGECTNTPGDYQCRCPRGARGDPRIPNGCVKTNLGLSVGIGVGS GAGLLVMGLGAAFLKRKVKKQRARMLRQKFFKQNRGHLLQQLVSQKADIAERMIIPLS ELEKATNNFDKSRELGGGGHGTVYKGILSDLHVVAIKKSKEAVQREIDEFINEVAILS QINHRNVVKLFGCCLETEVPLLVYEFISNGTLYHHLHVEGPMSLPWEDRLRIATETAR ALAYLHSAVSFPIIHRDIKSHNILLDGSLTTKVSNFGASRCIPAEQTGITTVVQGTLG YLDPMYYYTGRLTEKSDVFSFGVVLIELLTRKKPYSYRSPDDESLVTHFTALLTQGNL GDILDPQVKEEGGEEVKEIAVLAVACAKLKVEERPTMR</aaseq>|
DNA = <dnaseqindica>19..1165#1672..2687#atcattcaaccaccggctatggcgatggcgatggcgatggcgctgctgctgctgctgcttctgcagctgtggtcggtggaagcgcaggtcgcagcgccgccgccggcgagctgcccggacaggtgcggcgacgtgagcgtgccgtacccgttcggcatccgcgacggctgccacctcccgggcttccgcctcacctgcgacgccacccacaccccgccgcgcctgatgctcggcaacggcaccctccaggtcgtcgacatctccctggccaactccaccgtgcgcgccctcgacctcgccggcgccgtcaacttcacctacgacgtgtcgaagctcgcccccagcggcagcggcacgtggtccagcctcggcaccgtcgccggcgccggcccgtacgtcgtctccgagcagcgcaaccggctcgtcgtcacgggctgcaacgtccaggccacgctcgccggggagaacaccaacatcatcggcggctgctcctccttctgcccggtcagcgagatgttcaccagcgtggcggcgaccgtccccgtcgtccccggcgccggcgccgacaacgccaccgatggcggcttcatctgctccggcaccagctgctgcgagacgcccatcgccatcggccgcccctcctacctcgtgcagttcctcagccttgaccagaaccaggagctcaccggcaagctccccgtcgccgtgcgcatcgccgagcgtgggtggttcgagggcgtcgccggcgagctgctcaacaccagctccgactccgccgccgccctccggacgccggtcccggtggtgctggagtgggtggtgtcgccgacgctggaggcggtgctgcagggcgtcaccgggcagttcgccgacgaccgcaactggtcgtgccccgcggacgcggcgaggagcgcatgccggagcagcaacagcttctgcagcaacgtcaccggcaactaccgccgcggctacgtgtgcaggtgccggcgaggctacggcgggaacccctacgtcgccggcggatgccaagacatcgacgagtgcaagctcgccgggaggtgctacggcgagtgcaccaacacgccgggagattaccagtgccggtgcccgcgcggcgctcgtggcgacccgcgcattccaaacggctgcgtcaaaactaatctaggtaactacacctacatttttctgctttgacatagtccaatttatgcacagatttttcaaagaatggaaaactaatctaggtactaataactgaaatatcctgctttacattgtcagtcaaatttatgcagagagctctgcaatgtagttctgttttatacagcagtctttctttaactgttcttccaagtacttgcatcgactactctgttttcatagactgatcttgcttttcttattaaccaaatggctgataaattattttacttgatagtgctagctctgcaatgaaactctgtttagtacatcagtctttctttaacagttcagtcaagtactagcaccaactgctctgtttcataaacacaagcatactactctgttttttcatagactaatctttccataacgttgtttttcttattaaccaactcccatattctagttcataggtgaaatatctaccaactctgatggagatttttgccttctcttgtgtgctaccaggtttaagtgttggtattggagttggcagtggagctgggcttttggtaatgggactgggcgctgcctttttaaaacgtaaggttaagaaacagagagcaagaatgctgaggcagaagttcttcaagcagaaccgaggtcatttgttgcaacaactagtgtctcagaaggctgacattgctgaaaggatgatcatccccttgtcagaactggagaaggccacaaacaattttgataaatcacgtgagcttggaggaggggggcacggcaccgtgtacaaagggattttatcggatcttcatgttgtcgcgatcaagaaatctaaggaggcagttcaaagagagattgacgagttcataaatgaggtagccattctctcgcaaatcaaccatcgtaatgtggtcaaactttttggatgttgtcttgagacagaagtgccattgctggtttatgaattcatatcaaatggtaccctttaccaccatcttcatgttgaaggaccaatgtcattgccatgggaagataggctcagaattgcaaccgaaaccgctagagcacttgcctaccttcactcagctgtgtcgttccctataatccacagggatatcaaatcccataacatcctattagatggttcactaacaacaaaagtgtccaattttggagcttcaaggtgcattccagctgaacaaactgggataacaaccgttgttcaaggaacactaggatatctggaccccatgtactactacacagggcgtctcactgagaaaagcgatgttttcagcttcggcgtcgttctaatagagttgcttactaggaagaaaccatactcatacagatcgcctgatgatgaaagtcttgtaacacatttcactgccctactcacacaaggcaacttgggcgacatacttgatcctcaggtcaaggaagagggaggcgaagaagttaaagagatagctgtgttagctgtggcatgtgccaagctgaaagtagaggagcggcctactatgaggtaggtggagatgacactcgaaagtgttcgattgtcatcacagcagcaagagcatggtgtgggtgcaaagaaatccagggagaatcatgtctcctggagctacccggtaagtgagggtacaagtacacaatcaactagacaatatagccttgaagaagagtatttgttgtcatcaaggtttcccagataatggatttttttttctggagtggttttggatcaatagaaagagttgtcacaatgtacaaggcatatgatatgcatgattttcatagctaaatgtgcactgttttattgttcttctt</dnaseqindica>|
Link = [http://www.ncbi.nlm.nih.gov/nuccore/NM_001070468.1 RefSeq:Os09g0561600]|
}}
[[Category:Genes]]
[[Category:Japonica mRNA]]
[[Category:Oryza Sativa Japonica Group]]
[[Category:Japonica Genes]]
[[Category:Japonica Chromosome 9]]
[[Category:Chromosome 9]]

File:360软件小助手截图20140525170149.png

2014-05-25T09:21:09Z

Xiaopeiwu0509: Figure 1.Figure 1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.

Figure 1.Figure 1. Analysis of the sterile phenotype in the
OsDEES1 RNAi transgenic rice plants.

File:Fig 1.png

2014-05-25T09:16:42Z

Xiaopeiwu0509: uploaded a new version of "File:Fig 1.png": figure 1

Phenotype of wild type and the pap2-1 mutant in panicle development

File:Fig 1.png

2014-05-25T09:15:37Z

Xiaopeiwu0509: uploaded a new version of "File:Fig 1.png": Figure 1.1. Analysis of the sterile phenotype in the OsDEES1 RNAi transgenic rice plants.

Phenotype of wild type and the pap2-1 mutant in panicle development