簸箕柳R2R3-MYB转录因子家族全基因组分析

Genome-wide analysis of the R2R3-MYB transcription factor family in Salix suchowensis

摘要:

为研究簸箕柳中R2R3-MYB转录因子家族成员的分类和进化，以及在抗重力刺激中可能具有的功能，本研究使用全基因组鉴定策略和其它生物信息学手段对簸箕柳相关家族成员进行详细的分析.结果表明，在簸箕柳中共鉴定出158个R2R3-MYB蛋白，这些成员进一步被分为23个亚组.基因结构和基序组成分析表明，在同一亚组中的基因通常具有相似的内含子-外显子结构和相似的基序组成，进一步支持了系统发育分析的结果.通过共线性分析了SsMYB家族的进化，85对SsMYB基因被预测来自串联或者片段复制事件，这在SsMYB家族的扩展中起着重要作用.此外，本研究利用RNA-seq数据分析重力刺激下SsMYB基因的表达情况，筛选出20个潜在的MYB抗重力刺激蛋白.

Abstract:

In order to study the taxonomy and evolution of the R2R3-MYB transcription factor family members and their possible functions under gravistimulation, this study used genome-wide identification strategy and other bioinformatics methods to analyze the related family members of Salix suchowensis in detail. The results showed that a total of 158 R2R3-MYB proteins were identified in Salix suchowensis. These members were further divided into 23 subgroups. The analysis of gene structure and motif composition showed that genes in the same subgroup usually had similar exon/intron structure and similar motif composition, which further supported the results of phylogenetic analysis. Syntenic analysis was performed to explore the evolution of the SsMYB family. 85 pairs of SsMYB genes were predicted to arise from tandem or segment duplication events, which played an important role in the expansion of the SsMYB family. In addition, RNA-seq data was used to analyze the expression pattern of SsMYB genes under gravistimulation, and 20 potential SsMYB genes were screened out which involved in negative gravitropism of the stem.