大豆GeBP转录因子基因家族的生物信息学分析

Bioinformatics analysis of GeBP transcription factor gene family in Glycin max

关键词:  大豆, GeBP转录因子, 生物信息, 组织表达

Key words:  Glycin max, GeBP transcription factor, bioinformatics, tissue expression

摘要:

GeBP转录因子调控植物表皮毛的生长发育,并且参与控制植物叶片的发育。该文利用生物信息学方法,在大豆全基因组范围内搜索GeBP基因家族,并从氨基酸理化性质、基因结构、染色体的物理分布、系统进化、序列比对、功能结构域、组织表达情况等基本特征方面对GmGeBP基因家族进行分析。结果表明:(1)共获得9个GmGeBP转录因子基因家族成员,其中仅2个基因含有内含子,且都只有1个内含子,表明该家族成员基因构造比较简单但稳定。(2)GmGeBP编码的蛋白分子量为39.65～49.24 kD,理论等电点为4.65～9.08; 这些成员基本上都是酸性氨基酸,属于亲水性、不稳定蛋白。(3)这9个基因不均匀的分布于7条染色体上,10和 20 号染色体上分别分布2 个 GeBP基因,3、5、13、15、19号染色体上各分布 1 个基因。(4)系统进化分析表明,大豆与拟南芥对应的GeBP成员亲缘关系较近,分别聚类到4个分支,而与水稻的距离较远。(5)结构域分析表明,9个GmGeBP成员都包含DUF573结构域,推测该部分在GeBP转录因子中很可能是与靶标基因顺式作用元件互作的结构域。(6)通过分析大豆GmGeBP转录因子基因家族的组织表达,发现不同基因在大豆不同组织的表达量不同,具有一定的特异性。该文对大豆GeBP转录因子基因家族的分析和鉴定为进一步研究大豆表皮毛发育的分子作用提供了理论基础。

Abstract:

It has been clarified that GeBP transcription factor regulates the growth and development of plant epidermal hair and participates in the control of plant leaf development. The bioinformatics methods were used to identify the GeBP gene family in the whole Glycin max(soybean)genome, and from physicochemical properties of amino acids, as well as gene structure, physical distribution of chromosomes, phylogenetic tree, and multiple sequence comparison, the functional domain, tissues expression and other basic characteristics of GmGeBP gene family were analyzed. The results were as follows:(1)A total of nine members of GmGeBP transcription factor gene family were identified, of which only two genes contained introns and all had only one intron, indicating that the gene structure of the family members is relatively simple but stable.(2)The molecular weights of GmGeBPs were 39.65-49.24 kD, and the theoretical isoelectric point was 4.65-9.08; these members were basically acidic amino acids, which were hydrophilic and unstable proteins.(3)The chromosome physical distribution showed that nine genes were unevenly distributed on seven chromosomes, two GeBP genes on chromosome 10 and 20 respectively, and one gene on chromosome 3, 5, 13, 15 and 19, respectively.(4)The phylogenetic analysis showed that GeBP members of Glycin max and Arabidopsis thaliana were closely related, clustered into four branches respectively, but far away from Oryza sativa.(5)The analysis of domains showed that all the nine GmGeBP members contained DUF573 domain, which was probably the domain interacting with cis-acting elements of target genes in GeBP transcription factors.(6)By analyzing the expression of GmGeBP transcription factor gene family, we found that the expressions of different genes in different tissues were different, with a certain specificity. The analysis and identification of GmGeBP transcription factor gene family provide the theoretical basis for further studying the molecular role of Glycin max epidermal development.