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雷蒙德氏棉和亚洲棉TCP基因家族的生物信息学分析

李燕,姚金波,陈伟,张永山*   

  1. 中国农业科学院棉花研究所/棉花生物学国家重点实验室,河南 安阳 455000
  • 收稿日期:2015-11-18 出版日期:2016-09-15 发布日期:2016-09-15
  • 通讯作者: zhangys@cricaas.com.cn
  • 作者简介:李燕(1984―),女,硕士,助理研究员,hai-19@163.com
  • 基金资助:
    中央级公益性科研院所基本科研业务费专项(1610162015B13);棉花生物学国家重点实验室基金(CB2015C16)

Genome-Wide Identification of the TCP Gene Family in Gossypium raimondii and Gossypium arboreum Using Bioinformatic Analysis

Li Yan, Yao Jinbo, Chen Wei, Zhang Yongshan*   

  1. Institute of Cotton Research of Chinese Academy of Agriculture Sciences / State Key Laboratory of Cotton Biology, Anyang, Henan 455000, China
  • Received:2015-11-18 Online:2016-09-15 Published:2016-09-15

摘要: TCP基因家族是植物中特有的一类转录因子家族,涉及了植物的多种生长途径以及各种生理生化反应的信号传导。为了更好地了解TCP基因家族在雷蒙德氏棉和亚洲棉基因组中的数量和分布情况等,通过生物信息学方法,在雷蒙德氏棉(D5)和亚洲棉(A2)全基因组中分别鉴定出37个TCP基因家族成员,并对TCP家族成员进行基因结构、染色体定位、保守域、进化关系等分析。结果表明,雷蒙德氏棉和亚洲棉全基因组分别编码37个TCP转录因子成员。雷蒙德氏棉30个成员基因分布在10条染色体上,亚洲棉37个成员基因分布在13条染色体上;内含子/外显子结构分析表明,TCP基因结构较为简单,大部分不含内含子;功能结构域分析,发现所有TCP转录因子具有高度保守的TCP结构域;根据结构域差异和系统发育分析的结果,将TCP基因家族分成2个亚族,进一步划分为PCF、CIN、CYC/TB1三个亚类。以上结果为进一步研究棉花TCP基因家族各成员的功能奠定一定的理论基础。

关键词: TCP基因家族; 雷蒙德氏棉; 亚洲棉; 生物信息学

Abstract: The TCP gene family encodes a specific type of plant transcription factors that are involved extensively in plant growth, development, and the signal transduction pathways of many physiological and biochemical responses. However, limited information is available about cotton TCP genes. Thirty-seven TCP genes were identified from the diploid cotton Gossypium arboreum (A2) and G. raimondii (D5) genome databases. According to the conserved motifs defined in Arabidopsis thaliana L., the protein structure and conserved sequences of each TCP motif were analyzed. We also analyzed the phylogenetic relationship and subcellular localization of the identified gene sequences. Structural analysis revealed that most TCP genes had simple structures and did not contain introns. The putative proteins of these genes contained highly conserved TCP structural domains and shared similar motifs. These proteins could be classified into two subfamilies according to their structure and phylogenic relationships. These results provide a basis for the further study of cotton TCP transcription factors.

Key words: TCP gene family; Gossypium raimondii; Gossypium arboreum; bioinformatics

中图分类号: 
  • S562.03