Fig. 5

Host transcriptome changes of primary esophageal epithelial cells upon co-culture with Campylobacter isolates. Shotgun sequencing of mRNA was performed on a NovaSeq platform (n = 3 per condition except for ESOS44-1, n = 5). A Volcano plots of differentially expressed genes between negative controls and the different Campylobacter isolates tested. Differential expression was calculated using DESeq2. Red, upregulated upon infection, Green, downregulated upon infection. B Genes that showed distinct significant differential regulation across the different isolates tested. Scale bar is log₂(fold-change). Patterns of particular interest included genes regulated only by ESOS44-1 and ESOS44-4 as well as those consistently regulated by ESOS44-4 and most C. concisus GS1. C Top ten pathways found to be significantly upregulated (red) and downregulated (green) following co-culture with ESOS44-1. D Top ten pathways found to be significantly upregulated (red) and downregulated (green) following co-culture with ESOS44-4. All analyses were conducted using Enrichr and P values were corrected for FDR. Only 1 and 3 pathways were identified to be significantly downregulated in ESOS44-1 and ESOS44-4 infection, respectively. E Genes found within KEGG “Pathways in cancer” and “Transcriptional misregulation in cancer” that were significantly upregulated by C. rectus ESOS44-4 and significantly upregulated in patients with metaplasia (MET). Only genes found to have > 0.5 log₂(fold-change) in both conditions are presented