2型糖尿病患者心肌间充质细胞基因表达变化及相关环境化学物的筛选

Changes of Gene Expression Profile in Cardiac Mesenchymal Cells in Patients with Type 2 Diabetes Mellitus and Screening of Their Related Environmental Chemicals

目的基于全基因组高通量测序数据研究2型糖尿病(T2DM)患者心肌间充质细胞的基因表达情况,筛选差异表达基因,采用生物信息学分析评估T2DM心肌间充质细胞的遗传规律及环境因素对上述规律的影响。方法从高通量基因表达公共数据库中获得数据集GSE106177,采用Network Analyst、Cytoscape、String11.0、CTD、HMDD等分析软件或数据库对数据进行预处理,筛选差异表达基因,进行生物学功能与信号通路富集分析,建立差异基因蛋白质相互作用(PPI)网络,筛选相关环境化学物。结果T2DM患者心肌间充质细胞的基因表达模式与对照组明显不同,共有135个差异表达基因,其中上调基因58个(42.96%),下调基因77个(57.04%);差异表达基因主要参与多细胞生物发育、解剖结构发展和系统发育等生物学过程,主要涉及肝细胞癌、库欣综合征、胆固醇代谢等通路。PPI网络显示,UBC为核心蛋白节点;microRNA-Gene交互作用网络显示,以hsa-mir-8485为代表的7个microRNA与差异表达基因具有交互作用关系;UBC、DNER、CNTN1等T2DM重要相关基因均与双酚A有交互作用关系。结论T2DM患者心肌间充质细胞的基因表达模式发生明显改变,UBC可能在上述过程中发挥重要生物学作用,双酚A暴露也可能影响T2DM患者心肌细胞的发育和正常功能。

Objective To study the gene expression of cardiac mesenchymal cells in patients with type 2 diabetes mellitus(T2DM)based on a whole-genome high-throughput sequencing dataset,screen differentially expressed genes,analyze the genetics signature of cardiac mesenchymal cells in T2DM patients by bioinformatics analysis,and explore the environmental chemicals related to the key differentially expressed genes.Methods The dataset GSE106177 was obtained from Gene Expression Omnibus(GEO)database.The dataset was pre-processed and analyzed by Network Analyst,Cytoscape 3.7.1,String11.0,CTD,and HMDD for screening for differentially expressed genes,enrichment analysis,establishment of protein-protein interaction(PPI)networks,and screening for relevant environmental chemicals.Results The gene expression pattern of cardiac mesenchymal cells in T2DM patients was significantly different from that in the control group.There were 135 differentially expressed genes,of which 58(42.96%)were up-regulated and 77(57.04%)were down-regulated.The differentially expressed genes mainly participated in biological processes such as multicellular organism development,anatomical structure development,and system development and were mainly involved in hepatocellular carcinoma,Cushing’s syndrome,and cholesterol metabolism.PPI network showed that UBC was the core protein node.The microRNA-Gene interaction network showed that seven microRNAs,represented by hsa-mir-8485,interacted with the differentially expressed genes.Key T2DM related genes such as UBC,DNER,and CNTN1 interacted with bisphenol A.Conclusions The gene expression profile of cardiac mesenchymal cells markedly changes in T2DM patients,during which UBC may play an important biological role.Bisphenol A exposure may also affect the development and normal function of cardiac cells in T2DM patients.