埃及伊蚊不同组织的基因共表达模式分析

Analysis of gene co-expression patterns in different tissues of Aedes aegypti (Diptera: Culicidae)

【目的】利用权重基因共表达网络分析(weighted gene co-expression network analysis,WGCNA)探索埃及伊蚊Aedes aegypti不同组织基因共表达模式。【方法】从NCBI SRA数据库中选择埃及伊蚊不同组织的转录组数据中具代表性的9种组织(雌雄成蚊的触角和脑,雌蚊的喙、下颚须和卵巢,雄成蚊的前足、中足、后足和腹部末端)的双端测序数据;经过缺失值移除以及方差计算后,筛选出方差最大的5000个基因,利用R软件中WGCNA包建立埃及伊蚊成蚊不同组织的基因共表达网络并划分模块;然后利用clusterProfiler包对组织特异性模块内的基因进行GO(Gene Ontology)和KEGG(Kyoto Encyclopedia of Genes and Genomes)富集分析,并用Cytoscape软件中的CytoHubba插件筛选共表达模块内的hub基因。【结果】从埃及伊蚊成蚊不同组织中共鉴定出11个基因共表达模块,在雌蚊触角、喙、卵巢、下颚须以及雄蚊脑、腹部末端组织中各鉴定出1个特异性表达模块,雄蚊前足、中足和后足组织中无特异性表达模块。6个组织特异性表达模块内基因功能注释到组织生物学功能;其中,雌蚊触角特异性green模块内基因具有气味结合和嗅觉受体活性等功能;雌蚊喙特异性purple模块内基因具有丝氨酸型肽链内切酶活性和丝氨酸水解酶活性等功能;雄蚊脑特异性blue模块内基因在生物学过程调节、信号转导和神经系统过程等生物学过程中发挥主要作用。利用CytoHubba进一步鉴定出所选组织特异性共表达模块中具有高连通性的hub基因,包括AAEL010426,AAEL002896,AAEL002600,AAEL000961,AAEL007784和AAEL006429。【结论】本研究依据埃及伊蚊不同组织转录组数据,利用WGCNA方法发现了许多重要的基因共表达模块。本研究的结果为蚊虫基因共表达模式分析提供新思路和方法基础,对探究蚊虫不同组织特有的基因资源信息以及功能基因生物信息学研究有参考价值。

【Aim】To explore the co-expression patterns of genes in different tissues of Aedes aegypti by using weighted gene co-expression network analysis(WGCNA).【Methods】Paired sequencing data of representative nine adult tissues(antenna and brain of female and male,proboscis,maxillary palp and ovary of female,and foreleg,midleg,hindleg and abdominal tip of male)were selected from the transcriptome data of different tissues of A.aegypti in the NCBI SRA database.After removing missing values and calculating variance,5000 genes with the highest variance were chosen,and the WGCNA package in R software was used to establish the gene co-expression networks in different adult tissues of A.aegypti and divide modules.Then the clusterProfiler package was used to conduct GO(Gene Ontology)and KEGG(Kyoto Encyclopedia of Genes and Genomes)enrichment analysis of the genes in the tissue-specific modules,and CytoHubba plug-in in Cytoscape software was adopted to screen the hub genes in co-expression modules.【Results】A total of 11 gene co-expression modules in different adult tissues of A.aegypti were identified,and one specific expression module was identified in every tissue of the antenna,proboscis,ovary and maxillary palp of female adult,and the brain and abdominal tip of male adult.There was no specific expression module in tissues of the foreleg,midleg and hindleg of male adults.Genes in six tissue-specific expression modules were annotated to biological functions of the corresponding tissues.Among them,genes in the female antenna specific green module have functions such as odor binding and olfactory receptor activity.Genes in the female proboscis specific purple module have functions such as serine-type endopeptidase activity and serine hydrolase activity.Genes in the male brain specific blue module play a major role in regulation of biological process,signal transduction,and nervous system processes.The hub genes with high connectivity in selected tissue-specific modules,including AAEL010426,AAEL002896,AAEL002600,AAEL000961,AAEL007784 and AAEL006429,were identified by using CytoHubba.【Conclusion】In this study,based on the transcriptome data of different tissues of A.aegypti we discovered many important co-expressed gene modules by using the WGCNA method.The results provide new ideas and a method basis for the analysis of mosquito gene co-expression patterns and have reference value for exploring the unique gene resource information and bioinformatical studies of functional genes in different tissues of mosquitoes.