1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
Identification of key genes and signaling pathways in comparative transcriptome analysis of bovine mammary epithelial cells challenged with Escherichia coli
Paper ID : 1318-ICB10
Authors:
Sonia Zakizadeh *1, Masoumeh Naserkheil2, Farzad Ghafouri3, Ali Kadivar4
1Animal Breeding and Genetics Department, Animal Science Research Institute of Iran, Agriculture Research, Education, and Extension Organization (AREEO), Karaj, Iran.
2Animal Breeding and Genetics Division, National Institute of Animal Science, Cheonan-si, Korea
3Department of Animal Science, University College of Agriculture and Natural Resources, University of Tehran, Karaj 77871-31587
43 Department of Clinical Sciences, Faculty of Veterinary Medicine, Shahrekord University, Shahrekord, Iran.
Abstract:
Substantial evidence demonstrates that the identification of pathogens is of major importance in order to correct actions, prevent transmission to other cows, reduce the risk of appearance of chronic infections, and aid to reduce inappropriate use of antibiotics, antimicrobial resistance, and cost of treatment [1–3]. Escherichia coli (E. coli) is one of the most prevalent Gram-negative pathogens known that causes mammary gland infections in dairy cattle [4] and may greatly influence animal welfare and milk composition/quality negatively [5]. Mammary epithelial cells (MEC) act as sentinels to bacterial intrusion by producing mediators of inflammation and local defense [6]. In this study, a public microarray dataset GSE47599 was used to explore the differentially expressed genes (DEGs) from 16 mammary epithelial cell samples containing 8 samples infected with E. coli and 8 samples as control. Differential gene expression analysis between infected and control samples was performed identifying 147 DE genes based on fold change > ±0.05 and false discovery rate <0.05, of which 13 were underexpressed and 134 genes were overexpressed in the infected samples compared to control samples. Among these genes, five genes—ISG15, CCL2, TLR2, MX1, and JAK2—were identified as the hub genes (highly connected genes), which were subjected to protein-protein interaction (PPI) network. Moreover, functional annotation and enrichment analysis identified 27, 9, and 3 GO terms related to inflammatory and immune responses in the biological process, molecular function, and cellular component categories, respectively. KEGG pathway significant enrichment analysis revealed that the DEGs participated in 44 pathways which are known to be enriched in TNF signaling pathway, IL-17 signaling pathway, Toll-like receptor signaling pathway, and chemokine signaling pathway. Therefore, the identification of disease-causing genes and genetic mechanisms related to immune or inflammatory responses helps to improve diagnosis, prognosis, and monitoring of responses to therapy.
Keywords:
Differentially expressed genes; Mammary epithelial cells; Pathway analysis; Bovine
Status : Paper Accepted (Poster Presentation)