植物学报 ›› 2014, Vol. 49 ›› Issue (1): 49-62.DOI: 10.3724/SP.J.1259.2014.00049

• 研究报告 • 上一篇    下一篇

水稻AT-hook基因家族生物信息学分析

张贵慰1†, 曾珏1†, 郭维1, 罗琼2*   

  1. 1云南农业大学农学与生物技术学院, 昆明 650201;
    2云南农业大学植物保护学院, 昆明 650201
  • 收稿日期:2013-03-11 修回日期:2013-06-01 出版日期:2014-01-01 发布日期:2014-01-01
  • 通讯作者: 罗琼
  • 基金资助:

    国家自然科学基金

Bioinformatics Analysis of the AT-hook Gene Family in Rice

Guiwei Zhang1†, Jue Zeng1†, Wei Guo1, Qiong Luo2*   

  1. 1College of Agronomy and Biotechnology, Yunnan Agricultural University, Kunming 650201, China

    2College of Plant Protection, Yunnan Agricultural University, Kunming 650201, China
  • Received:2013-03-11 Revised:2013-06-01 Online:2014-01-01 Published:2014-01-01
  • Contact: Qiong Luo

摘要: AT-hook是一种小型的DNA结合蛋白基序, 在哺乳动物非组蛋白染色体的高移动组蛋白(HMG-I/Y)中首次发现。对其它生物的研究表明, AT-hook蛋白在染色质结构组装、靶细胞特异性结合、转录调控和生长发育的调控中发挥重要作用。利用生物信息学方法, 从水稻(Oryza sativa)基因组中鉴定出了45个编码AT-hook蛋白的基因, 并对这些基因的系统进化、染色体定位及其编码蛋白的结构和功能等进行了系统的生物信息学分析。结果表明, 水稻AT-hook蛋白的结构和特性分化不显著; 45个水稻AT-hook基因可划分成5个亚族; 染色体复制是基因家族成员扩增的进化途径之一。基因数字表达分析结果显示, AT-hook基因主要在水稻幼穗中表达, 并通过qRT-PCR验证了部分基因的数字表达结果。

Abstract: The AT-hook is a small motif in DNA-binding protein that was first described in the high-mobility-group non-histone chromosomal protein HMG-I/Y. AT-hook family proteins play an important role in chromatin structure assembly, specific binding to target cells, transcription regulation and development regulation in other organisms. We identified 45 AT-hook genes from the rice genome by bioinformatics, analyzed the gene structure and chromosomal distribution, and examined the phylogenetic relationships among rice AT-hook proteins, finally constructing an unrooted tree from alignment of their full-length protein sequences in rice and Arabidopsis. AT-hook proteins grouped into 5 distinct clades (A–E), with no differences in structure or characteristics. The family members were recruited by chromosome replication. Digital gene expression analysis revealed that AT-hook genes mainly express in young panicles. We verified some of the gene expression by qRT-PCR.

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