水稻AT-hook基因家族生物信息学分析

doi:10.3724/SP.J.1259.2014.00049

摘要/Abstract

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。

关键词: AT-hook基因, 生物信息学, 基因表达, 水稻

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.

Key words: AT-hook gene, bioinformatics, gene expression, rice

中图分类号:

Q786

张贵慰, 曾珏, 郭维, 罗琼. 水稻AT-hook基因家族生物信息学分析. 植物学报, 2014, 49(1): 49-62.

Guiwei Zhang, Jue Zeng, Wei Guo, Qiong Luo. Bioinformatics Analysis of the AT-hook Gene Family in Rice. Chinese Bulletin of Botany, 2014, 49(1): 49-62.

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链接本文: https://www.chinbullbotany.com/CN/10.3724/SP.J.1259.2014.00049

https://www.chinbullbotany.com/CN/Y2014/V49/I1/49

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