Distribution, expression and methylation analysis of positively selected genes provides insights into the evolution in Brassica rapa

文献类型： 外文期刊

第一作者： Guo, Yue

作者： Guo, Yue;Liu, Jing;Du, Jianchang;Guo, Yue;Wang, Xingna;Li, Ying;Hou, Xilin

作者机构：

期刊名称：PLOS ONE （ 影响因子：3.752； 五年影响因子：4.069 ）

ISSN： 1932-6203

年卷期： 2021 年 16 卷 10 期

页码：

收录情况： SCI

摘要： It is believed that positive selection is one of the major evolutionary forces underlying organism phenotypic diversification. Nevertheless, the characteristics of positively selected genes (PSGs), have not been well investigated. In this study, we performed a genome-wide analysis of orthologous genes between Brassica rapa (B. rapa) and Brassica oleracea (B. oleracea), and identified 468 putative PSGs. Our data show that, (1) PSGs are enriched in plant hormone signal transduction pathway and the transcription factor family; (2) PSGs are significantly lower expressed than randomly selected non-PSGs; (3) PSGs with tissue specificity are significantly higher expressed in the callus and reproductive tissues (flower and silique) than in vegetable tissues (root, stem and leaf); (4) the proportion of PSGs is positively correlated with the number of retained triplication gene copies, but the expression level of PSGs decay with the increasing of triplication gene copies; (5) the CG and CHG methylation levels of PSGs are significantly higher in introns and UTRs than in the promoter and exon regions; (6) the percent of transposable element is in proportion to the methylation level, and DNA methylation (especially in the CG content) has the tendency to reduce the expression of PSGs. This study provides insights into the characteristics, evolution, function, expression and methylation of PSGs in B. rapa.

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