Transcriptional integration of separated and simultaneous microbial and nutritional signals by the intestinal epithelium. Transcriptional integration of separated and simultaneous microbial and nutritional signals by the intestinal epithelium

We performed RNA-seq, H3K27ac ChIP-seq, and HNF4a ChIP-seq on jejunal intestinal epithelial cells, which are primarily responsible for the absorption of fatty acids, in four conditions: Germ-free (GF), Germ-free plus high fat meal (GF+HFM), ex-GF colonized with a conventional microbiota for 2 weeks (Colonized, CV), and Colonized plus high fat meal (CV+HFM). We, for the first time, map genomewide HFM responsive regulatory regions in the intestine. We identify that in the absence of microbes the HNF4a transcriptional program supports a FAO program in enterocytes while suppressing a proliferation program. Overall design: Generation and analysis of RNA-seq, H3K27ac ChIP-seq, and Hnf4a ChIP-seq from primary IECs isolated from the jejunum of Germ-Free (GF), Colonized (CV), Germ-Free+High Fat Meal (GF+HFM), and CV+HFM (Colonized+High Fat Meal) mice.