1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
RNAseq analysis of Bovine infected with Mycobacterium avium subsp. Paratuberculosis in three time point
Paper ID : 1425-ICB10
Authors:
Sonia Zakizadeh *1, mohadese Dousti2, Nasibe Esmaili3, Azar Rashedi Dehsahraei4
1Animal Breeding and Genetics Division, Animal Science Research Institute of Iran, Agriculture Research, Education, and Extension Organization, Karaj, Iran
21Department of Plant Bioproducts, National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, Iran
3Department of Plant Bioproducts, National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, Iran
4Expert of Animal Breeding Center and Improving Livestock Production-Karaj, Iran
Abstract:
Johne's disease, a chronic intestinal disease of ruminants which caused by pathogen Mycobacterium avium subsp. Paratuberculosis (MAP), leads to an infection and serious economic losses for cattle production in the world. Consequently, the identification of MAP diseaseresponsive genes and their interaction can help us to improve diagnosis, prognosis, and monitoring of therapy [1, 2]. The present study aimed to explore the key differentially expressed genes (DEGs) and draw the protein-protein interaction networks using 8 RNAseq experiments in short (1h and 2h) [3, 4], mid (4h, 6h, and 8h) [3, 4] and long terms (24h and 72h) [1, 3] of infection, as well as provide the potential transcriptional markers for identifying the status of MAP infection. In total, we observed 1777 (670 up, 1107 down), 1834 (685 up, 1149 down) and 1480 (951 up, 529 down) DEGs in response to short, mid and long terms of MAP infection, respectively. DAVID Gene ontology annotation and enrichment analysis revealed these DEGs were mainly involved in immune response, inflammation response, and cell survival pathways. By constructing and analyzing three PPI networks, we found some hub genes in each term of MAP infection: TNF, NDUFB7, NDUFS8 and MRPS2 were upregulated during 1h and 2h of infection while FN1, EGFR, MET and CDK1 were downregulated. TNF gene plays an important role in regulating the innate immune response to mycobacterial infection [4]. Among all candidate genes, the expression of EGFR and FGF1 increased during the progression of the disease. Thus, the candidate genes identified in our study can be suggested as biomarkers for the diagnosis of Johne's disease in dairy cattle.
Keywords:
Dairy cattle; John's disease;RNAseq analysis; Enrichment analasis
Status : Paper Accepted (Poster Presentation)