摘要
本研究为鉴定梨DREB基因,分析其生理特性和结构,并研究DREB蛋白的相互作用以及在不同逆境中的表达差异,通过生物信息学方法,对梨DREB转录因子进行了鉴定与分析。如利用本地BLAST、Pfam等搜索、鉴定DREB蛋白;采用Protparam、Signal P、SPOMA、MEME数据库、DNAMAN、MEGA6.0等对蛋白进行结构特性和进化关系分析;基于String数据库对DREB蛋白进行功能互作分析;并运用拟南芥Illumia RNA-Seq数据进行同源表达分析。从梨全基因组中鉴定了60个DREB基因,通过与拟南芥DREB基因聚类分析,共分为6个亚组（A1-A6）。编码的氨基酸残基数在99-496个之间,平均含有250个氨基酸残基,整体呈弱酸性。系统分析了Pbr DREBs蛋白的保守基序和基因结构,发现这些Pbr DREBs蛋白都含有一个典型的AP2/ERF结构域,这个结构域含有55个左右的氨基酸残基,大部分以YRG保守元件开始,到RAYD保守元件终止。对Pbr DREBs蛋白之间的功能联系网络进行了系统的研究,发现DREB转录因子在梨的生长发育过程及其多种逆境反应的信号转导中发挥着重要作用,且在逆境调控中各亚组成员之间也可能存在交叉作用,其中,A1亚组即CBF转录因子在蛋白质相互调控中起重要作用。并利用同源拟南芥RNASeq数据对Pbr DREBs蛋白进行了低温、干旱等非生物胁迫下的同源分析,表明DREB蛋白在多种胁迫中都起到了重要作用。初步鉴定出的梨60个DREB基因在功能、结构、特性等方面与拟南芥及其它已报道的物种DREB基因相似,并在低温、干旱等逆境中起到重要作用。
To id entify the DREB gene of pear, this research analyzed its physiological characteristics and structure, and studied the interaction of DREB protein and expression difference under different stress. The DREB transcription factor of pear was identified and analyzed by bioinformatics method. For instance, local BLAST,Pfam, etc. were used to search and identify DREB protein; Protparam, Signal P, SPOMA, MEME database, DNAMAN,MEGA6.0, etc. were used to analyze structural characteristics and evolutionary relationship of protein; functional interaction analysis of DREB protein was carried out based on the String database; meanwhile, homologous expression analysis was carried out by using Arabidopsis thaliana Illumia RNA-Seq data. 60 DREB genes were identified from the whole genome of pear, and were divided into 6 subgroups（A1-A6） by cluster analysis with Arabidopsis thaliana DREB gene. The number of encoded amino acid residues was between 99 and 496, with an average of 250 amino acid residues, and the whole was weakly acidic. The conserved motif and gene structure of the Pbr DREBs protein were systematically analyzed. It was found that these Pbr DREBs proteins contained a typical AP2/ERF domain, which contained about 55 amino acid residues, most of them started with YRG conserved elements, and terminated with RAYD conserved elements. The DREB transcription factor played an important role in the growth and development of pear and signal transduction of its various stress responses, and there might be interactions between the members of the subgroups in adversity regulation, which had been studied systematically by the functional linkage network between Pbr DREBs proteins. Among them, CBF transcription factor（A1 subgroup） played an important role in mutual regulation of protein. And the homologous analysis of Pbr DREBs protein was carried out under abiotic stresses such as low temperature and drought through homologous Arabidopsis thaliana RNA-Seq data. It showed that DREB protein played an important role in various stresses. The preliminary identified 60 DREB genes of pear were similar to DREB genes in Arabidopsis thaliana and other reported species in terms of function, structure and characteristics, which played an important role in adversity such as low temperature and drought.
作者
周凡
李丹
周军
王大玮
沈兵琪
邓浪
纪晴
高晓宇
Zhou Fan;Li Dan;Zhou Jun;Wang Dawei;Shen Bingqi;Deng Lang;Ji Qing;Gao Xiaoyu(Key Laboratory of Forest Genetic and Tree Improvement ＆ Propagation in University of Yunnan Province,Southwest Forestry University,Kunming,650244;Key Laboratory of Forest Resource Conservation and Utilization in the Southwest of China,Southwest Forestry University,Kunming,650244;College of Biological Sciences and Engineering,North Minzu University,Yinchuan,750021)
出处
《基因组学与应用生物学》
CAS
CSCD
北大核心
2018年第9期3889-3902,共14页
Genomics and Applied Biology
基金
国家林业局948项目(2013-4-44)
云南省林学一流学科建设经费
西南林业大学云南省高校林木遗传改良与繁育重点实验室开放基金
西南林业大学科技创新基金项目(C16092)共同资助
