Difference between revisions of "Os09g0434200"

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Please input one-sentence summary here.
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As a RING finger E3 ligase gene, ''Oryza sativa Delayed Seed Germination 1 (OsDSG1)'', controls seed germination and stress responses in rice<ref name="ref1"/>.
  
 
==Annotated Information==
 
==Annotated Information==
 
===Function===
 
===Function===
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Please input function information here.
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[[File: ABA-signaling pathway.jpg|left|thumb|270px|'''Figure 1.''''' Working model of ABA-signaling pathway in germinating
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rice seeds.(from reference <ref name="ref1"/>).'']]
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*Xpress-OsDSG1 proteins were seen as high-molecularmass ladders that are the characteristic of ubiquitination, whereas there was no ubiquitination signal in the absence of E1, E2 or ubiquitin，which indicating that ''OsDSG1'' is an E3 ubiquitin ligase.
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*''OsDSG1'' is involved in ABA signaling ,which influences drought and salt stress.
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*''OsDSG1'' is a member of the ABA signaling group, encodes a deduced protein that carries a RING finger motif present in a class of E3 ligases. The protein sequence is highly homologous to ''Arabidopsis'' AIP2, which functions as an E3 ligase.
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*ABA signaling, including via ''OsDSG1'', is the major determinant of germination success, and that an unknown regulatory trait
 +
must control the overall ABA-signaling pathway in developing seeds<ref name="ref1"/>.
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'''GO assignment(s):''' [http://amigo.geneontology.org/amigo/term/GO:0005515 GO:0005515], [http://amigo.geneontology.org/amigo/term/GO:0008270 GO:0008270]
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===Mutation===
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*To verify that the mutant phenotype was indeed due to disruption of ''OsDSG1'', we generated transgenic plants carrying the ''OsDSG1'' RNA interference (RNAi) construct(Fig. 3a). Among five independent RNAi plants, three were selected for further analyses (Fig. 3b).
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*The ''osdsg1'' T-DNA mutant and RNAi plants were tolerant to high salt and drought. Therefore, this mutant allele could be used for developing stress-tolerant cultivars. Because the trait is a loss-of-function mutation, it can be achieved via chemical mutagenesis or natural transposontagging, which does not involve gene manipulation<ref name="ref1"/>.
  
 
===Expression===
 
===Expression===
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Please input expression information here.
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[[File: OsDSG1 Real-time PCR.jpg|left|thumb|250px|'''Figure 1.''''' Real-time PCR analyses of OsDSG1 transcript levels in seedlings
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.(from reference <ref name="ref1"/>).'']]
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*Real-time PCR analyses indicated its presence in roots and leaves, with levels slowly decreasing as the plants matured (Fig. 1c). In
 +
spikelets, expression was higher at 25 days after fertilization(DAF) than at 6 DAF (Fig. 1c). However, transcripts were markedly increased in seeds during germination (Fig. 1d). It's in agreement with those reported by ''Zhang et al.''<ref name="ref2"/>, where ''Arabidopsis'' AIP2 was expressed in various vegetative and reproductive organs.
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*''Zhu''<ref name="ref3"/> has reported that ABA influences the inhibitory effect of salts on germination. On regular MS media, the rate for the ''osdsg1'' mutant was 70%, i.e., 20% lower than for WT seed(Fig. 5a). However, under salt stress (150 mM NaCl), the mutant germination rate was 5 times higher than for WT(Fig. 5a). Since salt stress induces ABA response, it is expected that germination rate of osdsg1 is further reduced under the stress condition. However, the mutant germinated better, probably due to increased tolerance of the seedlings to the salt stress.
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*Mutation in ''OsDSG1'' increases expressions of ''OsABI5'' and ABA-responsive genes. ''Park et al.'' examined transcript levels of two well-known ABA-responsive genes: RESPONSIVE TO DESSICATION29B (RD29B) and RESPONSIVE TO ABA18 (RAB18)<ref name="ref4"/>. Quantitative real-time PCR analyses showed that transcript levels of RD29B and RAB18 were elevated.  
  
 
===Evolution===
 
===Evolution===
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Please input evolution information here.
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''OsDSG1'' is homologous to AIP2, which negatively regulates ABA signaling by targeting ABI3 for post-translational destruction.
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''Park et al.'' synthesized cDNA containing the full-length ORF and compared its sequence with genomic DNA. This gene consists of four
 +
exons and encodes a protein of 320 amino acid residues, which is most similar to ''Arabidopsis'' AIP2, an E3 ligase containing the RING finger motif. The proteins shared 41% sequence identity and 49% similarity. Alignment of the ''OsDSG1'' protein with AIP2 showed that the C-terminal region containing the RING finger motif is most conserved<ref name="ref1"/><ref name="ref2"/>.
  
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You can also add sub-section(s) at will.
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===Knowledge Extension===
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More than 387 members of RING finger genes occur in ''Arabidopsis'', and 300 in rice, although it is not clear if all of those genes encode E3 ubiquitin ligases. Little is known about the functional roles of RING finger E3 ligase in rice. However, one such gene, ''OsBIRF1'', causes a reduction in ABA sensitivity in the roots and increases drought tolerance during germination<ref name="ref5"/>. ''Oryza sativa Delayed Seed Germination 1 (OsDSG1)'' encodes a RING finger E3 ligase, which negatively regulates ''OsABI3''.
  
 
==Labs working on this gene==
 
==Labs working on this gene==
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Please input related labs here.
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*Crop Biotech Institute & Department of Plant Molecular Systems Biotechnology, Kyung Hee University, Yongin 446-701, Republic of Korea
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*Department of Plant Genetic Engineering, Catholic University of Daegu, Gyeongsan 712-702, Republic of Korea
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*Department of Life Science, Pohang University of Science and Technology (POSTECH), Pohang 790-784, Republic of Korea
  
 
==References==
 
==References==
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Please input cited references here.
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<references>
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* <ref name="ref1">
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Park G G, Park J J, Yoon J, et al. A RING finger E3 ligase gene, Oryza sativa Delayed Seed Germination 1 (OsDSG1), controls seed germination and stress responses in rice[J]. Plant molecular biology, 2010, 74(4-5): 467-478.
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</ref>
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* <ref name="ref2">
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Zhang X, Garreton V, Chua N H. The AIP2 E3 ligase acts as a novel negative regulator of ABA signaling by promoting ABI3 degradation[J]. Genes & Development, 2005, 19(13): 1532-1543.
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</ref>
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* <ref name="ref3">
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Zhu J K. Salt and drought stress signal transduction in plants[J]. Annual review of plant biology, 2002, 53: 247.
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</ref>
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* <ref name="ref4">
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Wang Q, Guan Y, Wu Y, et al. Overexpression of a rice OsDREB1F gene increases salt, drought, and low temperature tolerance in both Arabidopsis and rice[J]. Plant molecular biology, 2008, 67(6): 589-602.
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</ref>
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* <ref name="ref5">
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Liu H, Zhang H, Yang Y, et al. Functional analysis reveals pleiotropic effects of rice RING-H2 finger protein gene OsBIRF1 on regulation of growth and defense responses against abiotic and biotic stresses[J]. Plant molecular biology, 2008, 68(1-2): 17-30.
 +
</ref>
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</references>
  
 
==Structured Information==
 
==Structured Information==

Revision as of 19:20, 3 January 2015

As a RING finger E3 ligase gene, Oryza sativa Delayed Seed Germination 1 (OsDSG1), controls seed germination and stress responses in rice[1].

Annotated Information

Function

Figure 1. Working model of ABA-signaling pathway in germinating rice seeds.(from reference [1]).
  • Xpress-OsDSG1 proteins were seen as high-molecularmass ladders that are the characteristic of ubiquitination, whereas there was no ubiquitination signal in the absence of E1, E2 or ubiquitin，which indicating that OsDSG1 is an E3 ubiquitin ligase.
  • OsDSG1 is involved in ABA signaling ,which influences drought and salt stress.
  • OsDSG1 is a member of the ABA signaling group, encodes a deduced protein that carries a RING finger motif present in a class of E3 ligases. The protein sequence is highly homologous to Arabidopsis AIP2, which functions as an E3 ligase.
  • ABA signaling, including via OsDSG1, is the major determinant of germination success, and that an unknown regulatory trait

must control the overall ABA-signaling pathway in developing seeds[1].

GO assignment(s): GO:0005515, GO:0008270

Mutation

  • To verify that the mutant phenotype was indeed due to disruption of OsDSG1, we generated transgenic plants carrying the OsDSG1 RNA interference (RNAi) construct(Fig. 3a). Among five independent RNAi plants, three were selected for further analyses (Fig. 3b).
  • The osdsg1 T-DNA mutant and RNAi plants were tolerant to high salt and drought. Therefore, this mutant allele could be used for developing stress-tolerant cultivars. Because the trait is a loss-of-function mutation, it can be achieved via chemical mutagenesis or natural transposontagging, which does not involve gene manipulation[1].

Expression

Figure 1. Real-time PCR analyses of OsDSG1 transcript levels in seedlings .(from reference [1]).
  • Real-time PCR analyses indicated its presence in roots and leaves, with levels slowly decreasing as the plants matured (Fig. 1c). In

spikelets, expression was higher at 25 days after fertilization(DAF) than at 6 DAF (Fig. 1c). However, transcripts were markedly increased in seeds during germination (Fig. 1d). It's in agreement with those reported by Zhang et al.[2], where Arabidopsis AIP2 was expressed in various vegetative and reproductive organs.

  • Zhu[3] has reported that ABA influences the inhibitory effect of salts on germination. On regular MS media, the rate for the osdsg1 mutant was 70%, i.e., 20% lower than for WT seed(Fig. 5a). However, under salt stress (150 mM NaCl), the mutant germination rate was 5 times higher than for WT(Fig. 5a). Since salt stress induces ABA response, it is expected that germination rate of osdsg1 is further reduced under the stress condition. However, the mutant germinated better, probably due to increased tolerance of the seedlings to the salt stress.
  • Mutation in OsDSG1 increases expressions of OsABI5 and ABA-responsive genes. Park et al. examined transcript levels of two well-known ABA-responsive genes: RESPONSIVE TO DESSICATION29B (RD29B) and RESPONSIVE TO ABA18 (RAB18)[4]. Quantitative real-time PCR analyses showed that transcript levels of RD29B and RAB18 were elevated.

Evolution

OsDSG1 is homologous to AIP2, which negatively regulates ABA signaling by targeting ABI3 for post-translational destruction. Park et al. synthesized cDNA containing the full-length ORF and compared its sequence with genomic DNA. This gene consists of four exons and encodes a protein of 320 amino acid residues, which is most similar to Arabidopsis AIP2, an E3 ligase containing the RING finger motif. The proteins shared 41% sequence identity and 49% similarity. Alignment of the OsDSG1 protein with AIP2 showed that the C-terminal region containing the RING finger motif is most conserved[1][2].

Knowledge Extension

More than 387 members of RING finger genes occur in Arabidopsis, and 300 in rice, although it is not clear if all of those genes encode E3 ubiquitin ligases. Little is known about the functional roles of RING finger E3 ligase in rice. However, one such gene, OsBIRF1, causes a reduction in ABA sensitivity in the roots and increases drought tolerance during germination[5]. Oryza sativa Delayed Seed Germination 1 (OsDSG1) encodes a RING finger E3 ligase, which negatively regulates OsABI3.

Labs working on this gene

  • Crop Biotech Institute & Department of Plant Molecular Systems Biotechnology, Kyung Hee University, Yongin 446-701, Republic of Korea
  • Department of Plant Genetic Engineering, Catholic University of Daegu, Gyeongsan 712-702, Republic of Korea
  • Department of Life Science, Pohang University of Science and Technology (POSTECH), Pohang 790-784, Republic of Korea

References

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 Park G G, Park J J, Yoon J, et al. A RING finger E3 ligase gene, Oryza sativa Delayed Seed Germination 1 (OsDSG1), controls seed germination and stress responses in rice[J]. Plant molecular biology, 2010, 74(4-5): 467-478.
  2. ↑ 2.0 2.1 Zhang X, Garreton V, Chua N H. The AIP2 E3 ligase acts as a novel negative regulator of ABA signaling by promoting ABI3 degradation[J]. Genes & Development, 2005, 19(13): 1532-1543.
  3. ↑ Zhu J K. Salt and drought stress signal transduction in plants[J]. Annual review of plant biology, 2002, 53: 247.
  4. ↑ Wang Q, Guan Y, Wu Y, et al. Overexpression of a rice OsDREB1F gene increases salt, drought, and low temperature tolerance in both Arabidopsis and rice[J]. Plant molecular biology, 2008, 67(6): 589-602.
  5. ↑ Liu H, Zhang H, Yang Y, et al. Functional analysis reveals pleiotropic effects of rice RING-H2 finger protein gene OsBIRF1 on regulation of growth and defense responses against abiotic and biotic stresses[J]. Plant molecular biology, 2008, 68(1-2): 17-30.

Structured Information

Gene Name

Os09g0434200

Description

Zinc finger, RING-type domain containing protein

Version

NM_001069786.1 GI:115479314 GeneID:4347141

Length

3337 bp

Definition

Oryza sativa Japonica Group Os09g0434200, 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

Chromosome 9

Location

Chromosome 9:16598292..16601628

Sequence Coding Region

16598447..16598596,16598707..16598913,16599474..16599718,16599980..16600193,16601252..16601398

Expression

GEO Profiles:Os09g0434200

Genome Context

<gbrowseImage1> name=NC_008402:16598292..16601628 source=RiceChromosome09 preset=GeneLocation </gbrowseImage1>

Gene Structure

<gbrowseImage2> name=NC_008402:16598292..16601628 source=RiceChromosome09 preset=GeneLocation </gbrowseImage2>

Coding Sequence

<cdnaseq>atgtcggcccccgcggcggtggagcagcggctgcaggcgctgcggcagaagctggggaggaagcagcacttcgaggaggccgtcgccgacctcgccgccgcggtccgggaccaccacgccgccgcctcccccgccctccgcgatctgatgtattctacagtttgccgtgtggcaactgtccttcagactagatatacagcacctggattctggcgtgctggtctgaacctcttcttaggtacagagaagctggtaactaatccttcagaaaaggagcaactgaagactttcattctgagggcccgggagcatcttgatgagaaagagaacgaggaatccatgccaaacaacagggaaacagatacaagatttctttttgaagggcatcttacagtgggacctgaacctccacctcctgcctggcttgttgcccagaatttagcacgagaacttagcattttagctgaaccttctggagatcaaggtgcgaacaacaacggagagtccagggctgaggagatggcacctgctgctgctataatgaatttcttaaacaccatgacagtggatggagacctagaagccgctttggaagaatctctgcagaatgtgatggcgaatcctaaggtgcctccagcttcaaaggaagtcgttgcgaatctaccagttgtaaccgtgacagaagaaatcatagctagattgggcaaagagactcagtgtgctgtttgccgggagagcttgctggtggacgacaagatgcaggagctaccgtgcaagcatcttttccaccctccatgcctcaagccatggctggacgagaacaactcctgcccgatctgccggcacgagctgaggacggacgaccatgtgtacgagagccggaaggagcgggagcgagaagaggaggaagacaggaagggcgccgcgaatgctgtcaggggtggggagttcatgtatgtctga</cdnaseq>

Protein Sequence

<aaseq>MSAPAAVEQRLQALRQKLGRKQHFEEAVADLAAAVRDHHAAASP ALRDLMYSTVCRVATVLQTRYTAPGFWRAGLNLFLGTEKLVTNPSEKEQLKTFILRAR EHLDEKENEESMPNNRETDTRFLFEGHLTVGPEPPPPAWLVAQNLARELSILAEPSGD QGANNNGESRAEEMAPAAAIMNFLNTMTVDGDLEAALEESLQNVMANPKVPPASKEVV ANLPVVTVTEEIIARLGKETQCAVCRESLLVDDKMQELPCKHLFHPPCLKPWLDENNS CPICRHELRTDDHVYESRKEREREEEEDRKGAANAVRGGEFMYV</aaseq>

Gene Sequence

<dnaseqindica>3033..3182#2716..2922#1911..2155#1436..1649#231..377#gtgtccgtcgacacgccgccaccgccacgggggttggggatttctttcccctcctccaagccaagccggacgcggacgccaccgccctcgccttcacctccatttatacctccggcgagcgccgcggcggcggcgacgcacgcatccttccttcctcctcccgcaccaccggcgaccggtaaaacggagagacccgtgggcgagcttgttcgaggcggggcaccaccaccatgtcggcccccgcggcggtggagcagcggctgcaggcgctgcggcagaagctggggaggaagcagcacttcgaggaggccgtcgccgacctcgccgccgcggtccgggaccaccacgccgccgcctcccccgccctccgcgatctggtaaatgaggccgacctcccctagccagcgccccccccccccctctctcacctcacgttacttcccgatttcctttcgttgcggcctgggttaggtccaacgtcgccgccgctgtggtaatgatgaatctaggttcgattggtccggtaatggagtagaattcttactctaaagtcatcatcaatgggcagaagaaattaaaatgatcttctctgggattgttaatcctattaaaatgatcttctctgggattgttaatcctatgaaaatgatcttctctgggattgttagtcctgtcgtgtcagtaaggaacacgtccttagaataactcatctcatcccaacgaaattgttccttttcttttctccaagtagcttgatatctaaatttataacaagaggctaaacgttacaagtaaataccaatcaaaatgcagtgaaatcagtacgtacccatcaaaatttacatattcttcaagctagcatggagcatggttaaattcaaagcaagcaataaaaagaatctgccggagtagtagtttattataatccaatgaatcggcttggtaagatgtgacgttaacgttaacatcgcccaattcacgggaatcaagaaaccgaaataacgatcaccatgaacgattggaattatttgtagacagaagtagcgatgagtgacagagtaatctggctcaggtgtttcctgtggctttatgcacactcaatcgagcaaatgaggaatgacatacatggacagaactatgctaacaaaagtgatttccttggataatactaatccttttgtttcattatcttctgatgaagtaatcctgttaatgtaaaaacttctgatttttttaagttaaggttaacttctgatgctgatgcttttttagttaaggtcgtcctcagggattccatttttgtgtaccagtataccacacccctacaatcagttgtttggattagcattcttttccatactctaccttcattaatatcatccatcatatcgacatatataatgctcatttagcacaatcttttgttctttggcagatgtattctacagtttgccgtgtggcaactgtccttcagactagatatacagcacctggattctggcgtgctggtctgaacctcttcttaggtacagagaagctggtaactaatccttcagaaaaggagcaactgaagactttcattctgagggcccgggagcatcttgatgagaaagagaacgaggaatccatgccaaacaacagggaaacaggtatgtcattaataattgaataggatgatgtgacattcatagacacatctgcatacttagattggctatactctaatgattattctggaggcaacctgtgatgcatatgcaattaaatttatttcttggtgaaattgataaacataggagttcttcaagtacatatttgtctgcagtgtattttggtgaaataaactttccttaaaatattcacccttataaatatctatttgctaagaagatgtaaacttttttttccagatacaagatttctttttgaagggcatcttacagtgggacctgaacctccacctcctgcctggcttgttgcccagaatttagcacgagaacttagcattttagctgaaccttctggagatcaaggtgcgaacaacaacggagagtccagggctgaggagatggcacctgctgctgctataatgaatttcttaaacaccatgacagtggatggagacctagaagccgctttggaagaatctctgcaggtaagaaagaacaattcttgagagaatcaatttatttggtatacttatttcattattttttcagccctgaacttctatgttagtttcttgttgcacttttgcacactgcaaactggagtagtatccaaactgtgcacaaccataggcttttggcccatgttaggtgctatagagaaacaagcaaatttgataaatttgttgaatgtcttgatcagtggtttgtaaaatgatttttcaattactagtctgctgcgcattcaagtgctgatcaagttgctaaaagtggagctcatcatgctttgatgcatgccaaatttcttcatgttattatgttattgcaattatcaacttggtttagacccacattctcaaatttatataagcttgtcacttgctacaacgagaaggatatacttgtatctcttatgattgtctagtaaccaccactgaaattcttcgaaaatggaaagcccgcatttcatcattttgtcattcagttcaatagggtaacaagatttgcatattgttatggatcttgaatttggaactactattttcagaatgtgatggcgaatcctaaggtgcctccagcttcaaaggaagtcgttgcgaatctaccagttgtaaccgtgacagaagaaatcatagctagattgggcaaagagactcagtgtgctgtttgccgggagagcttgctggtggacgacaagatgcaggagctaccgtgcaagcatcttttccaccctccatgcctcaagccatggctggtaatgtccacataacccctttgaatcatctgaaagtagcctcgacgcatcgttacaactcggtgtagctgaacattatacccatcatggttgtgttgtgttgcacgcaggacgagaacaactcctgcccgatctgccggcacgagctgaggacggacgaccatgtgtacgagagccggaaggagcgggagcgagaagaggaggaagacaggaagggcgccgcgaatgctgtcaggggtggggagttcatgtatgtctgaacatctgaatttcaaccgaacgtgattatctctctgtaacgatttcctgaaattcagagtgcactggagttgaaaattcatgtacaaacaacgtttgcttcggttcaccaccgtatcttcgttgaatgatactaccactatacagccagcttatt</dnaseqindica>

External Link(s)

NCBI Gene:Os09g0434200, RefSeq:Os09g0434200

Retrieved from "https://ngdc.cncb.ac.cn/ricewiki/index.php?title=Os09g0434200&oldid=184616"