Differential Gene Expression in Rat Middle Cerebral Artery Occlusion Model

Ischemic stroke is a leading cause of global mortality and morbidity. Immediately following the event, neurovascular reperfusion to the infarcted area can injure the tissue, resulting in more serious disability. The discovery of differentially expressed genes and their signal pathways between MCAO and control rats can help to a better understanding of all biochemical mechanisms involved in this process. RNA-seq expression data of the GSE۱۵۴۰۹۸ series were used for analysis. Differentially expressed genes (DEGs) analysis, between groups (MCAO and Sham) with three biological replicates, was performed by DESeq۲ and threshold with p<۰.۰۵ and absolute values of log ۲Fold change >۱ and <۰.۵. the STRING and Cytoscape were used to map protein-protein interaction and to visualize the network, respectively. Pathways and ontologies were performed by Enrichr. We identified ۱۹۶ DEGs: ۱۰۱ upregulated and ۹۵ downregulated (p<۰.۰۵) and ۹ DEGs: ۶ upregulated and ۳ downregulated (p.adj<۰.۰۵). DEGs were represented in the volcano plot by plotMA. The top ۱۰ up-and-down regulated DEGs were listed. Gene ontology analysis revealed that the majority of the most enriched and meaningful biological processes and molecular function terms were mainly involved in immune and inflammatory response as well as cytokine receptor activity. Also, enriched were related to immune and neural-related pathways. The molecular mechanisms of Differentially expressed genes in cerebral hemispheres from MCAO and control rats may involve the PI۳K-Akt, IGF, Rap۱, BDNF, Microglia Pathogen Phagocytosis signaling Pathways, and Neutrophil Degranulation. The interaction of proteins in these pathways may be potential key targets for a better understanding of the pathological and underlying mechanism of protein-coding mRNAs that occur after MCAO.

کلیدواژه ها:

Ischemic stroke ، MCAO ، DEGs ، DESeq۲ ، Ontologies