RRC ID 52651
Author Matsushita J, Okamura K, Nakabayashi K, Suzuki T, Horibe Y, Kawai T, Sakurai T, Yamashita S, Higami Y, Ichihara G, Hata K, Nohara K.
Title The DNA methylation profile of liver tumors in C3H mice and identification of differentially methylated regions involved in the regulation of tumorigenic genes.
Journal BMC Cancer
Abstract BACKGROUND:C3H mice have been frequently used in cancer studies as animal models of spontaneous liver tumors and chemically induced hepatocellular carcinoma (HCC). Epigenetic modifications, including DNA methylation, are among pivotal control mechanisms of gene expression leading to carcinogenesis. Although information on somatic mutations in liver tumors of C3H mice is available, epigenetic aspects are yet to be clarified.
METHODS:We performed next generation sequencing-based analysis of DNA methylation and microarray analysis of gene expression to explore genes regulated by DNA methylation in spontaneous liver tumors of C3H mice. Overlaying these data, we selected cancer-related genes whose expressions are inversely correlated with DNA methylation levels in the associated differentially methylated regions (DMRs) located around transcription start sites (TSSs) (promoter DMRs). We further assessed mutuality of the selected genes for expression and DNA methylation in human HCC using the Cancer Genome Atlas (TCGA) database.
RESULTS:We obtained data on genome-wide DNA methylation profiles in the normal and tumor livers of C3H mice. We identified promoter DMRs of genes which are reported to be related to cancer and whose expressions are inversely correlated with the DNA methylation, including Mst1r, Slpi and Extl1. The association between DNA methylation and gene expression was confirmed using a DNA methylation inhibitor 5-aza-2'-deoxycytidine (5-aza-dC) in Hepa1c1c7 cells and Hepa1-6 cells. Overexpression of Mst1r in Hepa1c1c7 cells illuminated a novel downstream pathway via IL-33 upregulation. Database search indicated that gene expressions of Mst1r and Slpi are upregulated and the TSS upstream regions are hypomethylated also in human HCC. These results suggest that DMRs, including those of Mst1r and Slpi, are involved in liver tumorigenesis in C3H mice, and also possibly in human HCC.
CONCLUSIONS:Our study clarified genome wide DNA methylation landscape of C3H mice. The data provide useful information for further epigenetic studies of mice models of HCC. The present study particularly proposed novel DNA methylation-regulated pathways for Mst1r and Slpi, which may be applied not only to mouse HCC but also to human HCC.
Volume 18(1)
Pages 317
Published 2018-3-22
DOI 10.1186/s12885-018-4221-0
PII 10.1186/s12885-018-4221-0
PMID 29566670
PMC PMC5865360
MeSH Animals Binding Sites Biomarkers Carcinoma, Hepatocellular / genetics* Cell Line, Tumor Cell Transformation, Neoplastic / genetics* CpG Islands DNA Methylation* Epigenesis, Genetic* Gene Expression Profiling Gene Expression Regulation, Neoplastic* Genome-Wide Association Study Humans Liver Neoplasms / genetics* Male Mice Mice, Inbred C3H Promoter Regions, Genetic Protein Binding Transcription Factors / metabolism Transcription Initiation Site
IF 2.933
Resource
Human and Animal Cells Hepa 1-6(RCB1638)