Comparative genomic analysis of the WRKY III gene family in populus, grape, arabidopsis and rice

Biology Direct
Yiyi WangYan Xiang

Abstract

WRKY III genes have significant functions in regulating plant development and resistance. In plant, WRKY gene family has been studied in many species, however, there still lack a comprehensive analysis of WRKY III genes in the woody plant species poplar, three representative lineages of flowering plant species are incorporated in most analyses: Arabidopsis (a model plant for annual herbaceous dicots), grape (one model plant for perennial dicots) and Oryza sativa (a model plant for monocots). In this study, we identified 10, 6, 13 and 28 WRKY III genes in the genomes of Populus trichocarpa, grape (Vitis vinifera), Arabidopsis thaliana and rice (Oryza sativa), respectively. Phylogenetic analysis revealed that the WRKY III proteins could be divided into four clades. By microsynteny analysis, we found that the duplicated regions were more conserved between poplar and grape than Arabidopsis or rice. We dated their duplications by Ks analysis of Populus WRKY III genes and demonstrated that all the blocks were formed after the divergence of monocots and dicots. Strong purifying selection has played a key role in the maintenance of WRKY III genes in Populus. Tissue expression analysis of the WRKY III genes in Populus revealed that five...Continue Reading

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Citations

Sep 10, 2020·Frontiers in Plant Science·Philipp LemkeRatna Singh
Dec 24, 2018·International Journal of Molecular Sciences·Yanjun HeLili Li
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Aug 8, 2020·Computational Biology and Chemistry·Muhammad Aamir ManzoorYongping Cai
Feb 6, 2021·BioMed Research International·Ling KuiYang Dong
Sep 5, 2018·Plant Physiology and Biochemistry : PPB·Xinran ChengYan Xiang
Jul 23, 2021·Scientific Reports·Anne J VillacastinJeffery Q Shen

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Methods Mentioned

BETA
reverse transcription PCR

Software Mentioned

MEGA6
PROSITE
MEME ( Multiple Expectation Maximization for Motif Elicitation )
CODEML
compute pI / Mw
MapInspect
MEME
MEGA
primer Blast
SMART

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