摘要
该研究从NCBI网站下载油棕全基因组序列信息,从The Arabidopsis Information Resource(TAIR)数据库中下载得到拟南芥WRKY转录因子序列,并在油棕基因组数据库中进行BLAST同源序列比对分析,通过NCBI在线工具CDD和PFAM数据库进行蛋白结构与分析,剔除无WRKY结构域的系列,利用生物信息学方法对油棕WRKY转录因子进行分析及功能预测。结果表明:(1)从油棕基因组数据库中发掘WRKY转录因子95个,该WRKY转录因子蛋白质所编码氨基酸大小为116~1303 bp,95个均为亲水性蛋白,总体为不稳定蛋白(EgWRKY25和EgWRKY56除外),60个蛋白以α-螺旋为主要二级结构元件,35个以无规卷曲为主要二级结构元件。(2)保守结构域系统进化树结果表明,油棕WRKY转录因子家族蛋白主要分为三大类,即I、Ⅱ和Ⅲ类,其中I类分为I C、I N亚类,Ⅱ类分为Ⅱa、Ⅱb、Ⅱc和Ⅱd亚类。(3)内含子和外显子结构显示,EgWRKY基因结构进化高度保守。以上结果为油棕WRKY转录因子的挖掘、功能分析及分子生物学研究奠定了基础,同时为分子育种和遗传改良提供了参考。
Genome-wide sequence information of oil palm from NCBI website,and the WRKY transcription factor sequence from The Arabidopsis Information Resource( TAIR) Database were downloaded,BLAST homology sequence alignment analysis was carried out in oil palm genome database. Protein structure and analysis were carried out through CDD and PFAM database of NCBI online tool,and the series without WRKY domain were eliminated. Bioinformatics analysis and functional prediction of WRKY transcription factor in oil palm. The results were as follows:( 1) A total of95 Eg WRKY transcription factors were excavated,and they encoded 116-1 303 bp amino acids,predicting hydrophilic and unstable( except for Eg WRKY25 and Eg WRKY56). The main structure of 60 Eg WRKY proteins was α-helix,and the remaining 35 proteins were irregular curl.( 2) The phylogenetic analysis on conserved domain showed that Eg WRKY transcription factor family proteins were divided into three categories( Ⅰ,Ⅱ and Ⅲ) . Category I could be separated into I C and I N,and CategoryⅡwas classified intoⅡa,Ⅱb,Ⅱc andⅡd.( 3) The intron-exon structure analysis revealed that structures of Eg WRKY gene were highly conserved. This research will lay a foundation for the study of WRKY transcription factor exacavation,function analysis,and molecular biology of oil palm and provide references for its genetic modification and molecular breeding.
作者
周丽霞
曹红星
ZHOU Lixia;CAO Hongxing(Coconut Research Institute,Chinese Academy of Tropical Agricultural Science/Hainan Provincial Key Laboratory of Tropical Oil Crops Biology,Wenchang 571339,Hainan,China)
出处
《广西植物》
CAS
CSCD
北大核心
2020年第7期977-987,共11页
Guihaia
基金
农业农村部物种品种资源保护费项目(125163015000160004)
热带木本油料产业技术创新团队项目(17CXTD-13)
农业农村部农业国际交流与合作项目(SYZ2019-12)
国家自然科学基金(31601723)。
关键词
油棕
基因组
WRKY转录因子
生物信息学
表达分析
oil palm
genome
WRKY transcription factors
bioinformatics
expression and analysis
