Genome-wide and expression analysis of protein phosphatase 2C in rice and Arabidopsis

Simple item page
dc.contributor.authorXue, Tongtong
dc.contributor.authorWang, Dong
dc.contributor.authorZhang, Shizhong
dc.contributor.authorEhlting, Juergen
dc.contributor.authorNi, Fei
dc.contributor.authorJakab, Stephen
dc.contributor.authorZheng, Chengchao
dc.contributor.authorZhong, Yuan
dc.date.accessioned2014-08-18T20:58:10Z
dc.date.available2014-08-18T20:58:10Z
dc.date.copyright2008en_US
dc.date.issued2008-11-20
dc.descriptionBioMed Centralen_US
dc.description.abstractBackground: The protein phosphatase 2Cs (PP2Cs) from various organisms have been implicated to act as negative modulators of protein kinase pathways involved in diverse environmental stress responses and developmental processes. A genome-wide overview of the PP2C gene family in plants is not yet available. Results: A comprehensive computational analysis identified 80 and 78 PP2C genes in Arabidopsis thaliana (AtPP2Cs) and Oryza sativa (OsPP2Cs), respectively, which denotes the PP2C gene family as one of the largest families identified in plants. Phylogenic analysis divided PP2Cs in Arabidopsis and rice into 13 and 11 subfamilies, respectively, which are supported by the analyses of gene structures and protein motifs. Comparative analysis between the PP2C genes in Arabidopsis and rice identified common and lineagespecific subfamilies and potential 'gene birth-and-death' events. Gene duplication analysis reveals that whole genome and chromosomal segment duplications mainly contributed to the expansion of both OsPP2Cs and AtPP2Cs, but tandem or local duplication occurred less frequently in Arabidopsis than rice. Some protein motifs are widespread among the PP2C proteins, whereas some other motifs are specific to only one or two subfamilies. Expression pattern analysis suggests that 1) most PP2C genes play functional roles in multiple tissues in both species, 2) the induced expression of most genes in subfamily A by diverse stimuli indicates their primary role in stress tolerance, especially ABA response, and 3) the expression pattern of subfamily D members suggests that they may constitute positive regulators in ABAmediated signaling pathways. The analyses of putative upstream regulatory elements by two approaches further support the functions of subfamily A in ABA signaling, and provide insights into the shared and different transcriptional regulation machineries in dicots and monocots. Conclusion: This comparative genome-wide overview of the PP2C family in Arabidopsis and rice provides insights into the functions and regulatory mechanisms, as well as the evolution and divergence of the PP2C genes in dicots and monocots. Bioinformatics analyses suggest that plant PP2C proteins from different subfamilies participate in distinct signaling pathways. Our results have established a solid foundation for future studies on the functional divergence in different PP2C subfamilies.en_US
dc.description.reviewstatusRevieweden_US
dc.description.scholarlevelFacultyen_US
dc.description.sponsorshipThis work was supported by Shandong Agricultural University in China, the National Natural Science Foundation of China (Grant No. 30571308), the National Basic Research Program (Grant No. 2006CB1001006) of China and Millersville University of Pennsylvania in the US.en_US
dc.identifier.citationXue et al.: Genome-wide and expression analysis of protein phosphatase 2C in rice and Arabidopsis. BMC Genomics 2008, 9:550.en_US
dc.identifier.urihttp://www.biomedcentral.com/1471-2164/9/550
dc.identifier.urihttp://dx.doi.org/10.1186/1471-2164-9-550
dc.identifier.urihttp://hdl.handle.net/1828/5569
dc.language.isoenen_US
dc.publisherBioMed Centralen_US
dc.subjectCentre for Forest Biology
dc.subject.departmentDepartment of Biology
dc.titleGenome-wide and expression analysis of protein phosphatase 2C in rice and Arabidopsisen_US
dc.typeArticleen_US

Files

Original bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
Xue_Tongtong_BMCGenomics _2008.pdf
Size:
2.79 MB
Format:
Adobe Portable Document Format
Description:
Xue_Tongtong_BMCGenomics _2008.pdf
Download
License bundle
Now showing 1 - 1 of 1
No Thumbnail Available
Name:
license.txt
Size:
1.74 KB
Format:
Item-specific license agreed upon to submission
Description:
Download

Collections

Faculty and Staff Publications
Publications (Centre for Forest Biology)
 
University of Victoria Libraries

We acknowledge and respect the Lək̓ʷəŋən (Songhees and Esquimalt) Peoples on whose territory the university stands, and the Lək̓ʷəŋən and W̱SÁNEĆ Peoples whose historical relationships with the land continue to this day.