Genome-Wide Identification and Evolutionary Analysis of the SBP-Box Gene Family in Castor Bean

doi:10.1371/journal.pone.0086688

	Genome-Wide Identification and Evolutionary Analysis of the SBP-Box Gene Family in Castor Bean
	Zhang, Shu-Dong 1,2; Ling, Li-Zhen 1,2
通讯作者	Zhang,SD (reprint author),Chinese Acad Sci,Kunming Inst Bot,Key Lab Biodivers & Biogeog,Kunming,Peoples R China. ; sdchang@mail.kib.ac.cn
	2014-01-22
发表期刊	PLOS ONE
ISSN	1932-6203
卷号	9 期号:1 页码:e86688
摘要	Genes in the SQUAMOSA promoter-binding-protein (SBP-box) gene family encode transcriptional regulators and perform a variety of regulatory functions that involved in the developmental and physiological processes of plants. In this study, a comprehensive computational analysis identified 15 candidates of the SBP-box gene family in the castor bean (Ricinus communis). The phylogenetic and domain analysis indicated that these genes were divided into two groups (group I and II). The group II was a big branch and was further classified into three subgroups (subgroup II-1 to 3) based on the phylogeny, gene structures and conserved motifs. It was observed that the genes of subgroup II-1 had distinct evolutionary features from those of the other two subgroups, however, were more similar to those of group I. Therefore, we inferred that group I and subgroup II-1 might retain ancient signals, whereas the subgroup II-2 and 3 exhibited the divergence during evolutionary process. Estimation of evolutionary parameters (dN and dN/dS) further supported our hypothesis. At first, the group I was more constrained by strong purifying selection and evolved slowly with a lower substitution rate than group II. As regards the three subgroups, subgroup II-1 had the lowest rate of substitution and was under strong purifying selection. By contrast, subgroups II-2 and 3 evolved more rapidly and experienced less purifying selection. These results indicated that the different evolutionary rates and selection strength caused the different evolutionary patterns of the members of SBP-box genes in castor bean. Taken together, these results provide better insights into understanding evolutionary divergence of the members of SBP-box gene family in castor bean and provide a guide for future functional diverse analyses of this gene family.
关键词	Transcription Factors Phylogenetic Analysis Protein Evolution Dna-binding Arabidopsis Sequence Database Domain Plants Rates
学科领域	Multidisciplinary Sciences
DOI	10.1371/journal.pone.0086688
收录类别	SCI
语种	英语
WOS记录号	WOS:000330283100197
引用统计
文献类型	期刊论文
条目标识符	http://ir.kib.ac.cn/handle/151853/17947
专题	中国西南野生生物种质资源库
作者单位	1.Chinese Acad Sci, Kunming Inst Bot, Key Lab Biodivers & Biogeog, Kunming, Peoples R China 2.Chinese Acad Sci, Kunming Inst Bot, Plant Germplasm & Genom Ctr, Germplasm Bank Wild Species, Kunming, Peoples R China
推荐引用方式 GB/T 7714	Zhang, Shu-Dong,Ling, Li-Zhen. Genome-Wide Identification and Evolutionary Analysis of the SBP-Box Gene Family in Castor Bean[J]. PLOS ONE,2014,9(1):e86688.
APA	Zhang, Shu-Dong,&Ling, Li-Zhen.(2014).Genome-Wide Identification and Evolutionary Analysis of the SBP-Box Gene Family in Castor Bean.PLOS ONE,9(1),e86688.
MLA	Zhang, Shu-Dong,et al."Genome-Wide Identification and Evolutionary Analysis of the SBP-Box Gene Family in Castor Bean".PLOS ONE 9.1(2014):e86688.

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