摘要
【目的】单锌指DNA结合蛋白(DNA binding with one finger, Dof)是1类植物特有的转录因子,在植物生长发育与非生物胁迫响应中发挥非常重要的作用。本研究旨在对陆地棉Dof转录因子家族进行全基因组分析,为深入研究Dof基因参与植物生长发育的调控机制提供参考。【方法】基于最新发布的陆地棉基因组数据,利用生物信息学手段对陆地棉Dof基因家族进行全基因组鉴定,并系统分析Dof基因家族成员的理化性质、序列特征、基因复制、系统进化和表达谱。【结果】陆地棉中一共鉴定出118个Dof基因。经聚类分析将其分成9个亚家族,同一亚家族的陆地棉Dof基因有相似的内含子/外显子和基序分布模式。基因复制分析表明,全基因组复制可能导致陆地棉Dof基因的扩增。陆地棉Dof基因启动子区域存在不同植物激素和逆境胁迫响应元件。转录组分析表明,陆地棉Dof基因在不同的组织、发育时期和逆境胁迫下聚为3个表达模式不同的类群,暗示了其功能多样性。【结论】陆地棉Dof基因家族的全基因组鉴定和分析,有助于了解其进化和功能,为后续研究提供重要参考。
[Objective]The DNA binding with one finger proteins(Dof)are plant-specific transcription factors that play a very important role in plant growth,development and in response to abiotic stress.The aim of this study was to provide a reference for further functional study of the Dof genes associated with plant growth and development by genome-wide analysis of Dof transcription factor family in Gossypium hirsutum.[Method]Using the recently released upland cotton genomic data,the Dof genes in G.hirsutum were identified by bioinformatic method.The physico-chemical properties,sequence characteristics,gene duplication,phylogeny and expression pattern of Dof genes were analyzed.[Result]A total of 118 Dof genes were identified in G.hirsutum.Based on phylogenetic analysis,these Dof genes were divided into nine subfamilies,and the genes within the same subfamily had similar exon-intron organization and motif distribution.Gene duplication analysis revealed that whole genome duplication was the main contributor to the expansion of Dof genes in G.hirsutum.Cis-acting element analysis showed the promoters of Dof genes had cis-acting regulatory elements involved in stresses responses to different plant hormones.The results of RNA-seq data analysis revealed that Dof genes expression in G.hirsutum was classified into three types which had different expression pattern in different tissues,developmental stages and stresses,indicating gene functional differentiation.[Conclusion]The genome-wide identification and analysis of Dof gene family in G.hirsutum is helpful to understand the evolution and function,and provides a support for future studies.
作者
琚龙贞
赵汀
方磊
胡艳
张天真
Ju Longzhen;Zhao Ting;Fang Lei;Hu Yan;Zhang Tianzhen(State Key Laboratory of Crop Genetics and Germplasm Enhancement,Nanjing Agricultural University,Nanjing 210095,China;Agronomy Department,College of Agriculture and Biotechnology,Zhejiang University,Hangzhou 310058,China)
出处
《棉花学报》
CSCD
北大核心
2020年第4期279-291,共13页
Cotton Science
基金
浙江省科技计划项目——作物智能化育种体系研究(2020C02002-3)。
关键词
陆地棉
Dof基因
系统发育分析
表达分析
Gossypium hirsutum
Dof gene
phylogenetic analysis
expression analysis
