Genome-wide identification and expression analysis of PUB genes in cotton

文献类型： 外文期刊

第一作者： Lu, Xuke

作者： Lu, Xuke;Wang, Delong;Wang, Junjuan;Chen, Xiugui;Zhang, Binglei;Wang, Shuai;Guo, Lixue;Chen, Chao;Ye, Wuwei;Shu, Na

作者机构：

关键词： U-box domain; PUB gene; Cotton; Evolution; Collinearity; Homologous gene pairs

期刊名称：BMC GENOMICS （ 影响因子：3.969； 五年影响因子：4.478 ）

ISSN： 1471-2164

年卷期： 2020 年 21 卷 1 期

页码：

收录情况： SCI

摘要： Background: The U-box gene encodes a ubiquitin ligase that contain U-box domain. The plant U-box gene (PUB) plays an important role in the response to stresses, but few reports about PUBs in cotton were available. Therefore research on PUBs is of great importance and a necessity when studying the mechanisms of stress- tolerance in cotton. Results: In this study, we identified 93, 96, 185 and 208 PUBs from four sequenced cotton species G. raimondii (D-5), G. arboreum (A(2)), G. hirsutum (AD(1)) and G. barbadense (AD2), respectively. Prediction analysis of subcellular localization showed that the PUBs in cotton were widely localized in cells, but primarily in the nucleus. The PUBs in cotton were classified into six subfamilies (A-F) on the basis of phylogenetic analysis, which was testified by the analysis of conserved motifs and exon-intron structures. Chromosomal localization analysis showed that cotton PUBs were unevenly anchored on all chromosomes, varying from 1 to 14 per chromosome. Through multiple sequence alignment analysis, 3 tandem duplications and 28 segmental duplications in cotton genome D-5, 2 tandem duplications and 25 segmental duplications in A(2), and 143 homologous gene pairs in A(2) and D-5 were found; however no tandem duplications in A(2) or D-5 were found. Additionally, 105, 14 and 17 homologous gene pairs were found in the intrasubgenome of At and Dt, At sub-genome and Dt sub-genome of G. hirsutum, respectively. Functional analysis of GhPUB85A and GhPUB45D showed that these genes positively responded to abiotic stresses, but the expression patterns were different. In addition, although the expression levels of these two homologous genes were similar, their contributions were different when responding to stresses, specifically showing different responses to abiotic stresses and functional differences between the two subgenomes of G. hirsutum. Conclusions: This study reported the genome-wide identification, structure, evolution and expression analysis of PUBs in cotton, and the results showed that the PUBs were highly conserved throughout the evolutionary history of cotton. All PUB genes were involved in the response to abiotic stresses (including salt, drought, hot and cold) to varying degrees.

分类号：

  • 相关文献
作者其他论文 更多>>

微信小程序