小麦SBP基因家族生物信息学分析

doi:10.7668/hbnxb.2018.06.002

摘要/Abstract

摘要： SBP基因家族是植物所特有的一类重要转录因子，含79个氨基酸残基保守结构域，主要参与植物生长发育、生理生化过程。为进一步探讨小麦SBP基因家族的基因功能，通过比对小麦最新基因组数据，结合公布的Chinese Spring的基因组数据，采用生物信息学方法对其基因结构、染色体分布、蛋白保守结构域、系统进化树及表达谱进行分析。结果获得了50个SBP基因，命名为TaSBPs，根据染色体编号排列为TaSBP1~TaSBP50。结果表明，50个小麦TaSBP基因分布于除4B、4D染色体外的其余19条染色体上，编码192~1 104个氨基酸，基因外显子数量2~11个变化不等；串联重复和片段复制是小麦SBP家族基因扩张的主要模式；7种作物SBP基因的系统进化树可分为4个类别，同一类之间的结构较为相似；小麦50个TaSBP基因家族含有10个motif，推测小麦TaSBP基因家族应都含有motif1、motif2、motif4。50个TaSBP基因都在13个组织器官中检测到转录本，不同组织器官中TaSBP基因的表达存在明显的差异。

关键词: 小麦, SBP, 生物信息学, 进化树, 表达谱

Abstract: The squamosa promoter binding protein (SBP) gene family is specific transcription factor in plant, containing 79 amino acid residue conserved domains, and is mainly involved in plant growth, development and physiological and biochemical processes.However,genome-wide analysis of the SBP gene family has not been reported in wheat.To further explore the function of the wheat SBP gene, 50 SBP genes, named TaSBPs, were obtained by analyzing the latest genomic data of wheat, and were ranked according to the chromosome number as TaSBP1-TaSBP50. Combined with the published genome data of cultivar Chinese Spring, genes structure, chromosome distribution, conserved domain of proteins, phylogenetic trees and gene expression profiles of the wheat cultivars were analyzed using bioinformatics methods.The results showed that 50 TaSBP genes were distributed on the remaining 19 chromosomes except 4B and 4D chromosomes. The genes encoded 192-1 104 amino acids in length and the number of gene exons was from 2 to 11.The results of tandem repeat analysis showed that fragment replication and tandem repeats were the main patterns of gene expansion in the TaSBP family. The phylogenetic tree of seven crops SBP proteins were divided into four categories, and the structure of the same class was similar; The 50 TaSBP gene families in wheat contained 10 motifs, and it was presumed that the TaSBP gene family should contain motif1, motif2 and motif4.50 TaSBP genes were all detected in 13 tissues and organs, and the expression of TaSBP genes in different tissues were significantly different.

Key words: Wheat, SBP, Bioinformatics, Phylogenetic tree, Expression profiling

中图分类号:

Q78
S512.03

吕亮杰, 陈希勇, 胡梦芸, 刘玉平, 孙丽静, 马乐, 李辉. 小麦SBP基因家族生物信息学分析[J]. 华北农学报, 2018, 33(6): 8-16. doi: 10.7668/hbnxb.2018.06.002.

LÜ Liangjie, CHEN Xiyong, HU Mengyun, LIU Yuping, SUN Lijing, MA Le, LI Hui. Bioinformatics Identification of SBP Genes and Expression Profiles in Wheat[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2018, 33(6): 8-16. doi: 10.7668/hbnxb.2018.06.002.

http://www.hbnxb.net/CN/Y2018/V33/I6/8

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