Microbiota-driven epigenetic alterations in intestinal epithelial cells [ChIP-seq]

We compare H3K9Ac enrichment in intestinal epithelial cells from intestine of germ-free and microbiota-replete (conventionally-housed) mice. Intestinal epithelial cells were harvested from the intestine of conventional or germ-free C57Bl6J mice. Chromatin immunoprecipitation was performed with anti-H3K9Ac. Sequencing was performed using the Illumina HiSeq2500. Reads were mapped to the mm10 genome using Bowtie. Microbiota induce loss of H3K9Ac within mulitple sites of the Clec2e gene. Intestinal epithelial cells were harvested from the intestine of conventional or germ-free C57Bl6J mice, and ChIPseq was performed using H3K9Ac.