基于GEO数据库奶牛乳房炎致病菌差异表达基因的生物信息学分析
Bioinformatics Analysis of Differentially Expressed Genes of Pathogenic Dacteria of Dairy Cow Mastitis Based on GEO Database
张雅昆 1王亭亭 1谭晶 2杨敏 2曾艳荣 2谭承建2
作者信息
- 1. 贵州民族大学民族医药学院,贵阳 550025;贵州民族大学化学工程学院,贵阳 550025
- 2. 贵州民族大学民族医药学院,贵阳 550025
- 折叠
摘要
试验旨在筛选与奶牛乳房炎致病菌相关的差异表达基因(DEGs),分析其作用机理.在基因表达数据库(GEO)中筛选得到与奶牛乳房炎致病菌密切相关的基因芯片数据集GSE25413进行基因本体论(GO)和京都基因与基因组百科全书(KEGG)分析.联合String数据库在Cytoscape软件中构建出蛋白质互作网络(PPI)并筛选出主要的关键基因.结果显示,在GSE25413数据集中共筛选得到127个差异表达基因,其中上调表达基因49个,下调表达基因78个.GO分析共得到450条功能注释,主要涉及炎症反应、缺氧反应等;KEGG通路富集共得到446条信号通路,主要涉及癌症途径、肿瘤坏死因子等信号通路.PPI互作网络共筛选得到IL-6、IL-1B、VEGFA、CXCL8等10个关键基因.经筛选获得的关键基因可作为潜在的分子标志物用于奶牛乳房炎的早期诊断和临床治疗靶点的选择,为奶牛乳房炎的防治提供参考.
Abstract
The aim of this experiment was to screen the differentexpression genes(DEGs)associated with pathogenic bacteria of dairy cow mastitis and analyze their mechanism of action.The gene chip dataset GSE25413,which is closely related to the pathogenic bacteria of dairy cow mastitis,was screened from the gene expression database(GEO)and analyzed by gene ontology(GO)and Kyoto Encyclopedia of Genes and Genomes(KEGG).The combined String database constructs the Protein Interaction Network(PPI)in Cytoscape software and screens out the major key genes.The results showed that 127 differentially expressed genes were screened in the GSE25413 dataset,including 49 up-regulated genes and 78 down-regulated genes.A total of 450 functional annotations were obtained by GO analysis,mainly related to inflammation and hypoxia response.A total of 446 signaling pathways were obtained from KEGG pathway,which mainly involved cancer pathway,tumor necrosis factor and other signaling pathways.Ten key genes,including IL-6,IL-1B,VEGFA and CXCL8,were screened by PPI interaction network.The key genes obtained by screening can be used as potential molecular markers for early diagnosis and selection of clinical treatment targets for dairy cow mastitis,and provide reference for the prevention and treatment of dairy cow mastitis.
关键词
奶牛乳房炎/差异表达基因/GEO数据库Key words
Cow mastitis/Differentially expressed gene/GEO database引用本文复制引用
基金项目
贵州省科技计划(黔科合支撑[2019]2414)
国家自然科学基金(3160084)
国家自然科学基金(32160110)
国家自然科学基金(31660103)
出版年
2024
国家科技期刊平台
NSTL
万方数据