Genome-wide identification and comparative expression analysis reveal a rapid expansion and functional divergence of duplicated genes in the WRKY gene family of cabbage, Brassica oleracea var. capitata.
Genome-wide identification and comparative expression analysis reveal a rapid expansion and functional divergence of duplicated genes in the WRKY gene family of cabbage, Brassica oleracea var. capitata.
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DOI：
10.1016/j.gene.2014.12.005
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发表时间：
2015-02
期刊：
影响因子：
3.5
通讯作者：
Qiu-Yang Yao;En-Hua Xia;Feihu Liu;Li-zhi Gao
中科院分区：
文献类型：
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作者：
Qiu-Yang Yao;En-Hua Xia;Feihu Liu;Li-zhi Gao
WRKY转录因子是高等植物中十大转录因子家族之一，在植物发育和抗病性调控中发挥重要作用。迄今为止，人们对甘蓝WRKY TF家族的研究甚少。最近，已完成的甘蓝（B. oleraceavar.capitata）的研究，使我们能够系统地分析该物种的WRKY基因。共有148个WRKY基因的特点，并分为七个亚组，属于三个主要群体。系统发育和同线性分析表明，甘蓝WRKY基因库来自一个共同的祖先与拟南芥共享。B.甘蓝WRKY基因在其最近的祖先中被发现优先保留在全基因组三倍体（WGT）事件之后，这表明WGT事件在很大程度上促成了B中WRKY基因家族的快速扩展。甘蓝。来自各种组织的RNA-Seq数据的分析（即，根、茎、叶、芽、花和角果）的研究表明，大多数已鉴定的WRKY基因在甘蓝中均呈阳性表达，其中很大一部分表现出差异表达和组织特异性表达模式，表明这些基因成员可能在植物发育过程中发挥重要作用。对重复基因表达水平的比较分析表明，甘蓝WRKY旁系同源基因间存在明显的基因表达差异，表明这些重复WRKY基因在功能上存在差异。
WRKY transcription factors (TFs), one of the ten largest TF families in higher plants, play important roles in regulating plant development and resistance. To date, little is known about the WRKY TF family in Brassica oleracea. Recently, the completed genome sequence of cabbage (B. oleraceavar.capitata) allows us to systematically analyze WRKY genes in this species. A total of 148 WRKY genes were characterized and classified into seven subgroups that belong to three major groups. Phylogenetic and synteny analyses revealed that the repertoire of cabbage WRKY genes was derived from a common ancestor shared with Arabidopsis thaliana. TheB. oleraceaWRKY genes were found to be preferentially retained after the whole-genome triplication (WGT) event in its recent ancestor, suggesting that the WGT event had largely contributed to a rapid expansion of the WRKY gene family inB. oleracea. The analysis of RNA-Seq data from various tissues (i.e., roots, stems, leaves, buds, flowers and siliques) revealed that most of the identified WRKY genes were positively expressed in cabbage, and a large portion of them exhibited patterns of differential and tissue-specific expression, demonstrating that these gene members might play essential roles in plant developmental processes. Comparative analysis of the expression level among duplicated genes showed that gene expression divergence was evidently presented among cabbage WRKY paralogs, indicating functional divergence of these duplicated WRKY genes.