浙江农业学报 ›› 2018, Vol. 30 ›› Issue (1): 7-7.DOI: 10.3969/j.issn.1004-1524.2018.01.02

• 作物学报 • 上一篇    下一篇

荞麦ARF基因家族的鉴定及生物信息学分析

李洪有, 霍冬敖, 蔡芳, 张晓娜, 石桃雄, 陈其皎, 陈庆富*   

  1. 贵州师范大学 荞麦产业技术研究中心, 贵州 贵阳 550001
  • 收稿日期:2017-06-25 出版日期:2018-01-20 发布日期:2018-02-09
  • 通讯作者: 陈庆富,E-mail: cqf1966@163.com
  • 作者简介:李洪有 (1987—),男,四川资阳人,博士,助理研究员,主要从事植物分子生物技术研究。E-mail: lihongyouluod@163.com
  • 基金资助:
    国家现代农业产业技术体系荞麦育种岗位科学家专项资金(CARS-08-A4); 贵州省高层次创新型人才培养计划(20154020); 国家自然科学基金项目(31471562); 贵州师范大学资助博士科研项目(11904/0517051)

Identification and bioinformatics analysis of ARF gene family in buckwheat

LI Hongyou, HE Dong’ao, CAI Fang, ZHANG Xiaona, SHI Taoxiong, CHEN Qijiao, CHEN Qingfu*   

  1. Research Center of Buckwheat Industry Technology, Guizhou Normal University, Guiyang 550001, China
  • Received:2017-06-25 Online:2018-01-20 Published:2018-02-09

摘要: 生长素响应因子(auxin response factor, ARF)基因应答了生长素信号,在植物生长发育中具有重要的调控作用。以荞麦基因组数据库为基础,利用BlastP比对程序共鉴定了21个荞麦ARF基因,并对其基因结构、编码蛋白理化性质、保守结构域、保守基序、亚细胞定位、潜在磷酸化位点及系统进化关系进行了分析。基因结构分析表明,21个荞麦ARF基因均含有内含子,且不同基因间内含子数目存在较大差异。保守结构域分析显示,21个ARF蛋白均含有保守的B3和ARF结构域,部分ARF蛋白还含有Aux/IAA结构域。蛋白保守基序分析表明,21个ARF蛋白共有10个保守基序,基序长度在13~55个氨基酸之间。亚细胞定位分析表明,大多数ARF蛋白定位于细胞核,个别定位于叶绿体。潜在磷酸化位点分析显示,所有ARF蛋白均含有潜在的丝氨酸(Ser)、苏氨酸(Thr)和酪氨酸(Tyr)磷酸化位点,但各蛋白的不同磷酸化位点的数目差异较大。系统进化分析表明,21个ARF基因可以分为Ⅰ、Ⅱ、Ⅲ三个亚家族,其中,Ⅰ亚家族可以进一步分为Ⅰa和Ⅰb两个家族,Ⅱ亚家族可以进一步分为Ⅱa和Ⅱb两个家族。研究结果为进一步克隆荞麦ARF基因及深入研究它们在荞麦中的功能提供了参考。

关键词: 荞麦, ARF, 生物信息学分析, 保守结构域, 进化分析

Abstract: Auxin response factors (ARF) genes response to auxin signaling and play vital roles in plant growth and development. In the study, a total of 21 ARF genes from buckwheat genome were identified by using BlastP analysis, and then the gene structure, physical and chemical characteristics of encode proteins, conserved domains, conserved motif, subcellular localization, potential phosphorylation sites and evolutionary relationship of these genes were analyzed. Gene structure analysis showed that 21 ARF genes contain intron, and the intron number between genes was different. Conserved domains analysis indicated that all ARF proteins contain B3 and ARF domain, and some proteins also include Aux /IAA domain. Conserved protein motif analysis found that 10 conserved motifs with a range of 13 to 55 amino acids existed in buckwheat ARF proteins. Subcellular localization analysis showed that great majority of ARF proteins located in nucleus and a few of proteins located in chloroplast. Potential phosphorylation sites analysis indicated that all ARF proteins contain Ser, Thr and Tyr phosphorylation sites, but the number of each class’s phosphorylation site between genes was different. Phylogenetic analysis revealed that 21 ARF genes were divided into Ⅰ, Ⅱ and Ⅲ subfamily, and Ⅰ subfamily could be further classed into Ⅰa and Ⅰb subclass, and subfamily Ⅱ could be further divided into Ⅱa and Ⅱb subclass. This study laid a foundation for cloning of buckwheat ARF genes and further functional dissection in growth and development of buckwheat.

Key words: buckwheat, ARF, information analysis, conserved domain, evolution analysis

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