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Genome-Wide Identification and Evolutionary Analysis of the SBP-Box Gene Family in Castor Bean
Zhang, Shu-Dong1,2; Ling, Li-Zhen1,2
2014-01-22
发表期刊PLOS ONE
ISSN1932-6203
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
资助信息National Natural Science Foundation of China [31200172]
学科领域Multidisciplinary Sciences
DOI10.1371/journal.pone.0086688
收录类别SCI
语种英语
WOS研究方向Science & Technology - Other Topics
WOS类目Multidisciplinary Sciences
WOS记录号WOS:000330283100197
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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
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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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