| 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116～1 303 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Ⅱ a、Ⅱ b、Ⅱ c和Ⅱ d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。 |
| 关键词: 油棕, 基因组, WRKY转录因子, 生物信息学, 表达分析 |
| DOI：10.11931/guihaia.gxzw201907001 |
| 分类号:Q943 |
| 文章编号:1000-3142(2020)07-0977-11 |
| Fund project: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)[Supported by Protection Fee of Species Resources in Agriculture and Rural Department(125163015000160004); Program of Tropical Woody Oil Industry Technology Innovation Team(17CXTD-13); Agricultural International Exchange and Cooperation Program of the Ministry of Agriculture and Rural Department(SYZ2019-12); the National Natural Science Foundation of China(31601723)]。 |
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| Genome-wide identification and analysis for oil palm WRKY transcription factors |
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ZHOU Lixia, CAO Hongxing*
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Coconut Research Institute, Chinese Academy of Tropical Agricultural Science/Hainan Provincial
Key Laboratory of Tropical Oil Crops Biology, Wenchang 571339, Hainan, China
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| Abstract: |
| 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 of 95 EgWRKY transcription factors were excavated, and they encoded 116-1 303 bp amino acids, predicting hydrophilic and unstable(except for EgWRKY25 and EgWRKY56). The main structure of 60 EgWRKY proteins was α-helix, and the remaining 35 proteins were irregular curl.(2)The phylogenetic analysis on conserved domain showed that EgWRKY 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 Category Ⅱ was classified into Ⅱ a, Ⅱ b, Ⅱ c and Ⅱ d.(3)The intron-exon structure analysis revealed that structures of EgWRKY 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. |
| Key words: oil palm, genome, WRKY transcription factors, bioinformatics, expression and analysis |
