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棉花学报 ›› 2017, Vol. 29 ›› Issue (1): 17-28.doi: 10.11963/issn.1002-7807.201701003

• 研究与进展 • 上一篇    下一篇

陆地棉抗坏血酸过氧化物酶基因家族全基因组生物信息学分析

刘娜1,*,*(),吴金华1,2,*,*(),安亚茹1,杨君1,张艳1,王省芬1,马峙英1,2,*()   

  1. 1. 河北农业大学农学院/教育部华北作物种质资源研究与利用重点实验室/河北省作物种质资源重点实验室,河北 保定 071001
    2. 河北农业大学作物学博士后科研流动站,河北 保定 071001
  • 收稿日期:2016-03-03 出版日期:2017-01-15 发布日期:2017-01-15
  • 通讯作者: 刘娜,吴金华,马峙英 E-mail:liu_na_1991@126.com;nxywjh@126.com;mzhy@mail.hebau.edu.cn
  • 作者简介:刘娜(1991―),女,硕士研究生,liu_na_1991@126.com;吴金华,nxywjh@126.com
  • 基金资助:
    国家自然科学基金(31401426);河北省自然科学基金(C2015204060);河北农业大学作物学科梯队建设基金(TD2016C319)

Bioinformatics Analysis of the Ascorbate Peroxidase Gene Family in the Gossypium hirsutum L. Genome

Liu Na1,*,*(), Wu Jinhua1,2,*,*(), An Yaru1, Yang Jun1, Zhang Yan1, Wang Xingfen1, Ma Zhiying1,2,*()   

  1. 1. College of Agronomy of Hebei Agricultural University / North China Key Laboratory for Crop Germplasm Resources of the Education Ministry / Key Laboratory for Crop Germplasm Resources of Hebei, Baoding, Hebei 071001, China
    2. Postdoctoral Research Station of Crop Sciences, Hebei Agricultural University, Baoding, Hebei 071001, China
  • Received:2016-03-03 Online:2017-01-15 Published:2017-01-15
  • Contact: Na Liu,Jinhua Wu,Zhiying Ma E-mail:liu_na_1991@126.com;nxywjh@126.com;mzhy@mail.hebau.edu.cn

摘要: 目的 抗坏血酸过氧化物酶(Ascorbate peroxidase,APX)是过氧化物酶家族中的1类成员,可以清除活性氧。APX家族的生物信息学分析有助于更好地了解该家族基因。方法 利用生物信息学方法,从中国农业科学院棉花研究所提供的陆地棉序列中鉴定出14条APX基因家族序列,并对这14个成员的染色体定位、亚细胞定位、进化关系、理化性质、信号肽、保守基序以及其编码蛋白的结构特征进行了预测分析,并初步分析了部分基因的表达。结果 APX基因分布广泛,分散在不同的染色体上;且大部分APX蛋白定位在细胞质,是亲水性脂溶蛋白;有3个保守基序,保守性较强;基因起源和进化比较复杂;二级结构的主要元件为α-螺旋和无规则卷曲。根据表达分析推测,第1亚组和第2亚组的基因在棉纤维发育的不同时期起作用。结论 这些结果有望为APX家族成员的结构与功能挖掘提供参考。

关键词: 陆地棉; APX基因家族; 生物信息学分析; 纤维发育

Abstract:

[Objective] Ascorbate peroxidase (APX) is a type of peroxidase, which can scavenge reactive oxygen species. The objective of this study was to further characterize the APX gene families. [Method] Using bioinformatics methods, we identified 14 members of the APX gene family using the Gossypium hirsutum L. genomic sequence provided by the Institute of Cotton Research of the Chinese Academy of Agricultural Sciences. Systematic analyses focused on chromosome locations, subcellular localizations, evolutionary relationships, physicochemical properties, structure, and the presence of signal peptides and conserved motifs. Preliminary expression analyses were completed for selected genes related to fiber development. [Results] The APX gene family members were distributed on almost all chromosomes. Most of the encoded hydrophilic and lipid-soluble enzymes were localized to the cytoplasm. They had three conserved motifs, and the associated gene sequences were highly conserved. The origin and evolution of the APX genes was complex. Additionally, the predicted secondary structures of the main motifs consisted of α-helices and random coils. Genes in the first and second subgroups were speculated to affect different cotton fiber development stages. [Conclusion] These results may be useful for future studies of the structures and functions of APX family members.

Key words: Gossypium hirsutum L.; APX gene family; bioinformatics analysis; fiber development