Difference between revisions of "Os09g0522000"

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OsDREB genes in rice, Oryza sativa L., encode transcription activators that function in drought-, high-salt- and cold-responsive gene expression.
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The rice '''''Os02g0676800''''' was reported as '''''OsERF#020''''' in 2006 <ref name="ref1" /> by researchers from Japan.  
  
 
==Annotated Information==
 
==Annotated Information==
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===Gene Symbol===
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*'''''Os02g0676800''''' '''''<=>''''' '''''OsERF#020'''''
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===Function===
 
===Function===
The OsDREB proteins probably bind to the sequence and activate expression of these genes in rice. These rice genes are expected to be upregulated by overexpression of the OsDREB proteins.The structures of DREB1-type ERF/AP2 domains in monocots are closely related to each other as compared with that in the dicots. OsDREB1A is potentially useful for producing transgenic monocots that are tolerant to drought, high-salt, and/or cold stresses<ref name="ref1" />. OsDREB1A specifically binds DRE-related core binding motif, GCCGAC more preferentially than to ACCGAC unlike AtDREB1A, which shows efficient binding to both ACCGAC and GCCGAC<ref name="ref1" />. The responsiveness of OsDREB1A to NaCl and wounding stresses, in addition to its sensitivity to cold stress, imply that its role in the transduction of abiotic stress signals in rice is more similar to DREB1C rather than DREB1A in Arabidopsis. On the other hand, OsDREB1C was constitutively expressed in rice plants, which has a unique expression profile(Fig.1) <ref name="ref1" />.[[File:picture1 RNA-gel blot analysis of the OsDREB transcripts under various stress conditions.jpg|right|thumb|150px|''picture1. RNA-gel blot analysis of the OsDREB transcripts under various stress conditions. (from reference <ref name="ref1" />).'']]
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* Genes in the ERF family encode transcriptional regulators with a variety of functions involved in the developmental and physiological processes in plants.
 
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* It has been demonstrated that the AP2/ERF proteins have important functions in the transcriptional regulation of a variety of biological processes related to growth and development, as well as various responses to environmental stimuli.
===Expression===
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* Genes in the AP2 family have been shown to participate in the regulation of developmental processes, e.g. flower development (Elliott et al., 1996), spikelet meristem determinacy (Chuck et al., 1998), leaf epidermal cell identity (Moose and Sisco, 1996), and embryo development (Boutilier et al., 2002).<ref name="ref2" />
Expression of OsDREB1A and OsDREB1B was induced by cold, whereas expression of OsDREB2A was induced by dehydration and high-salt stresses, and transgenic Arabidopsis that over-express OsDREB1A were tolerant to drought, high salt and cold stresses. Over-expression of transcription factor OsDREB1B could improve not only freezing tolerance but heat tolerance as well of Arabidopsis, which might lay a strong foundation for exploiting the freezing and heat tolerance of rice and other species<ref name="ref2" />. DREB/CBF genes have been induced in response to cold-, drought-, and high salt-stresses, but the expression of DREB1A and DREB1B genes have been observed only under cold stress<ref name="ref1" /><ref name="ref3" />.
 
To investigate the response of rice DREB1s in abiotic stresses, we compared the expression of all these genes in rice variety IR64 under three types of stress (drought, salt, and cold) using microarray data from RiceGE (Fig. 2). [[File:picture2  Expression of rice DREB1s under drought, salt, and cold stresses in rice seedlings from the SALK RiceGE database.jpg|right|thumb|150px|''picture2. Expression of rice DREB1s under drought, salt, and cold stresses in rice seedlings from the SALK RiceGE database. (from reference <ref name="ref4" />).'']] Two genes in the paralogous regions of chromosomes 2/4 (Os02g45450, Os04g45380), and those in the cluster of chromosome 9(Os09g35010/Os09g35030) were massively and rapidly induced only by cold stress (4uC for 3 h). Os01g73770 and Os06g03670 were induced by all three abiotic stresses; moreover, the expression levels of Os01g73770 in response to salt stress and that of Os06g03670 in response to drought stress were much higher than those seen in response to other stresses. The other genes (Os06g06970, Os08g43200, Os08g43210, and Os09g35020) were not responsive to any of the stresses (data not shown) <ref name="ref4" />.
 
  
 
===Evolution===
 
===Evolution===
Plants have evolved several mechanisms in order to cope with adverse environmental conditions. The transcription factors(TFs) belonging to the DREB1/CBF subfamily have been described as major regulators of the plant responses to different abiotic stresses. OsDREB1B is not only induced by low temperatures, but also by drought and mechanical stress<ref name="ref5" />.
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* The ERF family is a large gene family of transcription factors and is part of the AP2/ERF superfamily, which also contains the AP2 and RAV families
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* The AP2/ERF superfamily is defined by the AP2/ERF domain, which consists of about 60 to 70 amino acids and is involved in DNA binding.
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* The AP2 family proteins contain two repeated AP2/ERF domains, the ERF family proteins contain a single AP2/ERF domain, and the RAV family proteins contain a B3 domain, which is a DNA-binding domain conserved in other plant-specific transcription factors, including VP1/ABI3, in addition to the single AP2/ERF domain.
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* The expansion of the ERF family in plants might have been due to chromosomal/segmental duplication and tandem duplication, as well as more ancient transposition and homing.
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* Since rice is a cultivated species, selection either during domestication from its wild ancestor or during agricultural improvement in the subsequent time may also have been important for the evolution of rice ERF family.<ref name="ref3" />
  
=== Transcription level===
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You can also add sub-section(s) at will.
The gene expression of OsDREB1B (Os09g35010) was analysed in plants subjected to several abiotic stress conditions, using semi-quantitative reverse-transcription (RT) PCR. For this, 2-week-old rice seedlings were subjected to cold (5 and 10 ¬C), salt (200 mM NaCl), drought, and ABA (100 lM) treatments for up to 24 h (Fig. 3A and Supplementary Fig. S3). [[File:picture3  Transcriptional profile of OsDREB1B in rice seedlings subjected to different stress treatments.jpg|right|thumb|150px|''picture3. Transcriptional profile of OsDREB1B in rice seedlings subjected to different stress treatments. (from reference <ref name="ref5" />).'']] The results confirmed that OsDREB1B is highly regulated by cold, as previously described<ref name="ref1" />. In addition, it was observed that this regulation is temperature dependent and shows a similar pattern in both shoots and roots (Fig. 3A). When rice seedlings were subjected to 10 ¬C, the OsDREB1B transcript level was rapidly induced (10 min), reached a peak at 1–2 h, and then started to decrease, returning to basal levels afterwards. At 5 ¬C, however, the induction of OsDREB1B only started after 40 min of cold and remained high until the end of the assay. Rice seedlings treated with ABA or subjected to high salinity showed a similar gene expression pattern for OsDREB1B in both shoots and roots. The transcript level of OsDREB1B was rapidly (10 min) upregulated after the onset of stress and followed by a downregulation after 20–40 min. This pattern was also observed in shoots under drought stress, whereas in roots the transcript level of OsDREB1B was kept high at least during 24 h after drought treatment. This suggests that OsDREB1B may play an important role in the plant response to drought, particularly at root level. In the case of NaCl and ABA treatments, there was also a transient upregulation of OsDREB1B after 5–10 h of NaCl treatment in shoots and 1–2 h of ABA treatment in roots. However, given that these changes also appear in the mock control, they are likely to be not specific to NaCl and ABA treatments.
 
Under mock treatment, a circadian regulation of OsDREB1B could be observed, with the transcript level reaching a peak at 2–5 h after the start of the assay (6–9 h after dawn), decreasing afterwards. In addition, under the same treatment, OsDREB1B showed a transient increase of gene expression at 10 and 20 min. Since, in this case, the only change in conditions was the transfer of the plants to new growth medium, it was hypothesized if this upregulation could be due to a response to mechanical stress. Therefore, another assay was performed, in the same conditions as above, but where the plants were damaged and transferred to new medium. In this case, the OsDREB1B transcript level was highly induced in response to mechanical damage for at least 20 minutes, returning to basal levels afterwards (Fig. 3B). This may also explain the transient upregulation that was observed in the salt, drought, and ABA treatments around 10 and 20 min after the start of stress (Fig. 1A and Supplementary Fig. S1). Nevertheless, the transient induction observed in the salt and drought treatments seems to be more significant than the one seen in the mock treatment<ref name="ref5" />.
 
  
 
==Labs working on this gene==
 
==Labs working on this gene==
* Japan International Research Center for Agricultural Sciences (JIRCAS)
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* Molecular and Cellular Breeding Research Group, Institute for Biological Resources and Functions, National Institute of Advanced Industrial Science and Technology, Tsukuba, Ibaraki 305–8566, Japan (T.N., K.S., H.S.);
* Ministry of Agriculture, Forestry and Fisheries, Japan
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* Graduate School of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki 305–8672, Japan (T.N., T.F.)
* RIKEN Tsukuba Institute
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* the Youth Fund of Shanghai Academy of Agricultural Sciences
 
* the Shanghai Key Basic Research Project
 
* Council of Scientific and Industrial Research (CSIR)
 
* National Bureau of Plant Genetic Resources (NBPGR)
 
  
 
==References==
 
==References==
 
<references>
 
<references>
 
* <ref name="ref1">
 
* <ref name="ref1">
Joseph G. Dubouzet, Yoh Sakuma, Yusuke Ito, et al. (2003) OsDREB genes in rice, Oryza sativa L., encode transcription activators that function in drought-, high-salt- and cold-responsive gene expression. The Plant Journal 33(4): 751-763.
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Nakano T, Suzuki K, Fujimura T, Shinshi H. Genome-wide analysis of the ERF
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gene family in Arabidopsis and rice. Plant Physiol. 2006 Feb;140(2):411-32.
 +
PubMed PMID: 16407444; PubMed Central PMCID: PMC1361313.
 
</ref>
 
</ref>
 
* <ref name="ref2">
 
* <ref name="ref2">
Qiu-lin Qin, Jin-ge Liu, Zhen Zhang, et al. (2007)  Isolation, optimization, and functional analysis of the cDNA encoding transcription factor OsDREB1B in Oryza Sativa L. Molecular Breeding 19(4): 329-340.
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Chuck G, Muszynski M, Kellogg E, Hake S, Schmidt RJ. The control of spikelet
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meristem identity by the branched silkless1 gene in maize. Science. 2002 Nov
 +
8;298(5596):1238-41. PubMed PMID: 12424380.
 
</ref>
 
</ref>
 
* <ref name="ref3">
 
* <ref name="ref3">
Ito Y, Katsura K, Maruyama K, et al. (2006) Functional analysis of rice DREB1/CBF-type transcription factors involved in cold-responsive gene expression in transgenic rice. Plant Cell Physiol 47:141–153.
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Riechmann JL, Meyerowitz EM. The AP2/EREBP family of plant transcription
</ref>
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factors. Biol Chem. 1998 Jun;379(6):633-46. Review. PubMed PMID: 9687012.
* <ref name="ref4">
 
Donghai Mao;Caiyan Chen. (2012) Colinearity and Similar Expression Pattern of Rice DREB1s Reveal Their Functional Conservation in the Cold-Responsive Pathway. PLoS ONE 7(10): e47275
 
</ref>
 
* <ref name="ref5">
 
Duarte D. Figueiredo;Pedro M. Barros;André M. Cordeiro, et al. (2012) Seven zinc-finger transcription factors are novel regulators of the stress responsive gene OsDREB1B. Journal of Experimental Botany 63(10): 3643-3656.
 
 
</ref>
 
</ref>
 
</references>
 
</references>
<br>
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[[Category:Genes]]
 
[[Category:Genes]]
 
[[Category:Japonica mRNA]]
 
[[Category:Japonica mRNA]]

Revision as of 07:39, 23 March 2017

The rice Os02g0676800 was reported as OsERF#020 in 2006 [1] by researchers from Japan.

Annotated Information

Gene Symbol

  • Os02g0676800 <=> OsERF#020

Function

  • Genes in the ERF family encode transcriptional regulators with a variety of functions involved in the developmental and physiological processes in plants.
  • It has been demonstrated that the AP2/ERF proteins have important functions in the transcriptional regulation of a variety of biological processes related to growth and development, as well as various responses to environmental stimuli.
  • Genes in the AP2 family have been shown to participate in the regulation of developmental processes, e.g. flower development (Elliott et al., 1996), spikelet meristem determinacy (Chuck et al., 1998), leaf epidermal cell identity (Moose and Sisco, 1996), and embryo development (Boutilier et al., 2002).[2]

Evolution

  • The ERF family is a large gene family of transcription factors and is part of the AP2/ERF superfamily, which also contains the AP2 and RAV families
  • The AP2/ERF superfamily is defined by the AP2/ERF domain, which consists of about 60 to 70 amino acids and is involved in DNA binding.
  • The AP2 family proteins contain two repeated AP2/ERF domains, the ERF family proteins contain a single AP2/ERF domain, and the RAV family proteins contain a B3 domain, which is a DNA-binding domain conserved in other plant-specific transcription factors, including VP1/ABI3, in addition to the single AP2/ERF domain.
  • The expansion of the ERF family in plants might have been due to chromosomal/segmental duplication and tandem duplication, as well as more ancient transposition and homing.
  • Since rice is a cultivated species, selection either during domestication from its wild ancestor or during agricultural improvement in the subsequent time may also have been important for the evolution of rice ERF family.[3]

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

Labs working on this gene

  • Molecular and Cellular Breeding Research Group, Institute for Biological Resources and Functions, National Institute of Advanced Industrial Science and Technology, Tsukuba, Ibaraki 305–8566, Japan (T.N., K.S., H.S.);
  • Graduate School of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki 305–8672, Japan (T.N., T.F.)


References

  1. Nakano T, Suzuki K, Fujimura T, Shinshi H. Genome-wide analysis of the ERF gene family in Arabidopsis and rice. Plant Physiol. 2006 Feb;140(2):411-32. PubMed PMID: 16407444; PubMed Central PMCID: PMC1361313.
  2. Chuck G, Muszynski M, Kellogg E, Hake S, Schmidt RJ. The control of spikelet meristem identity by the branched silkless1 gene in maize. Science. 2002 Nov 8;298(5596):1238-41. PubMed PMID: 12424380.
  3. Riechmann JL, Meyerowitz EM. The AP2/EREBP family of plant transcription factors. Biol Chem. 1998 Jun;379(6):633-46. Review. PubMed PMID: 9687012.