大豆GmGLRs基因全基因组鉴定与表达分析

doi:10.7668/hbnxb.20190234

摘要/Abstract

摘要： 为明确大豆GmGLRs基因家族的结构特征以及不同组织的表达模式，利用生物信息学的方法，从全基因组水平鉴定了大豆GmGLRs基因家族，并对其染色体定位、系统进化关系、基因结构、跨膜结构域及组织表达模式进行分析。结果表明，在大豆基因组（Wm82.a2.v1）全基因组信息中共鉴定出17个GmGLRs基因。基因定位显示，这些基因不均匀的分布在10条染色体上，有5条染色体各分布1个GmGLRs基因，有3条染色体各分布2个GmGLRs基因，有2条染色体各分布3个GmGLRs基因。系统进化树分析将这些基因分为2个亚族，有2个GmGLRs基因在一个亚族，其他15个GmGLRs基因在另一个亚族，这些基因在系统进化关系上成对出现，表现出很高的同源性。基因结构分析表明，这些基因基本上都具有6个外显子，只有1个基因有7个外显子。此外，大豆GmGLRs基因的CDS序列长度差异不大，最长的CDS长度是2 844 bp，最短的CDS长度是2 409 bp，平均长度为2 748 bp。跨膜结构域预测结果表明，10个GmGLRs蛋白有3个跨膜结构域，4个GmGLRs蛋白有4个跨膜结构域，2个GmGLRs蛋白有5个跨膜结构域，1个GmGLR蛋白有2个跨膜结构域。组织表达模式研究显示，这些基因没有表现出组织特异性的差异，但是在表达丰度上存在显著差异，高、中、低丰度表达基因数分别为8，5，4个。结果为大豆GmGLRs基因的克隆和功能研究提供了理论基础。

关键词: 大豆, 大豆基因组, GmGLRs基因, 生物信息学, 表达分析

Abstract: The purpose of this study was to illustrate the structure traits of GmGLRs family in soybean and its expression pattern in different tissues. Based on the bioinformatics methods, the genes of GLRs family from Glycine max were identified, and then the gene chromosomal location, phylogenetic relationship, gene structure, transmembrane domain, as well as tissue expression pattern, were systematically analyzed. The results showed that a total of 17 GmGLRs genes were systematically identified from Glycine max var. Williams 82. Chromosome mapping analysis indicated that these genes were distributed on 10 different chromosomes unevenly. There were 5, 3 and 2 chromosomes with 1, 2 and 3 GLRs genes, respectively. These 17 GmGLRs genes were classified into 2 subfamilies within 2 GmGLRs genes in one subfamily and the other 15 GmGLRs genes in another subfamily according to phylogenetic relationship. On the phylogenetic relationship, these genes appeared in pair and showed highly homologous. All of the GmGLRs genes had 6 extrons, except one with 7 extrons. Otherwise, the longest, the shortest and the average length of CDS sequence of GmGLRs genes were 2 844, 2 409 and 2 748 bp respectively, indicating that the length of CDS sequence among these genes was less different. The prediction of transmembrane domain showed that 10, 4, 2 and 1 GmGLRs had 3, 4, 5 and 2 transmembrane domains, respectively. The expression patterns of GmGLRs genes in different tissues showed no spatial differences, but there were significant differences in expression abundance. The number of high, medium and low abundance expressed genes was 8, 5 and 4, respectively. The results of this paper would provide a theoretical basis for cloning and functional research of GmGLRs genes.

Key words: Glycine max, Genome of soybean, GmGLRs gene, Bioinformatics, Expression analysis

中图分类号:

S562.03
Q78

崔晓霞, 赵硕, 郭书巧, 束红梅, 何晓兰, 倪万潮, 巩元勇, 刘来华. 大豆GmGLRs基因全基因组鉴定与表达分析[J]. 华北农学报, 2019, 34(6): 1-8. doi: 10.7668/hbnxb.20190234.

CUI Xiaoxia, ZHAO Shuo, GUO Shuqiao, SHU Hongmei, HE Xiaolan, NI Wanchao, GONG Yuanyong, LIU Laihua. Genome-wide Characterization and Expression Analysis of Soybean GmGLRs Gene[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2019, 34(6): 1-8. doi: 10.7668/hbnxb.20190234.

http://www.hbnxb.net/CN/Y2019/V34/I6/1

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