Genome-wide alterations of DNA methylation and hydroxymethylation in uroepithelial cells revealed potential carcinogenicity of halobenzoquinone disinfection byproducts [Bisulfite-Seq]

Halobenzoquinones (HBQs), a class of emerging disinfection byproducts ubiquitously existed in drinking water, were predicted to be bladder carcinogens. HBQs exhibited a unique capacity to promote the conversion of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC). Thus, we propose that a varied epigenetic landscape may serve as an essential initial molecular event in cancer development under HBQs stress. We revealed genome-wide alteration of 5mC, 5hmC and transcription induced by HBQs in human bladder epithelial cells SV-HUC-1. HBQ exposure resulted in more hypo-methylated (39,365) and hyper-hydroxymethylated (26,053) sites, with 7,441 overlapping sites, suggesting the conversion of 5mC to 5hmC. The genes associated with hypo-differentially methylated regions (hypo-DMRs) and hyper-differentially hydroxymethylated regions (hyper-DhMRs) were enriched in cancer-related pathways, such as the Hippo signaling pathway, PI3K-AKT signaling pathway and Wnt signaling pathway. In particular, three bladder cancer-related genes associated with hypo-DMRs or hyper-DhMRs exhibited significantly differential expression. This study revealed epigenetic changes induced by HBQs and a potential association with the risk of bladder cancer. Overall design: SV-HUC-1 cells were treated with 2,6-Dichloro-1,4-benzoquinone (DCBQ) or blank solution for 3 days. Transcriptome data was obtained from RNA-seq. Genome-wide DNA methylation was obtained from Reduced representation bisulfite sequencing (RRBS). Genome-wide DNA hydroxymethylation was obtained from oxidative reduced representation bisulfite sequencing (oxRRBS).