Expression data from mouse crypt

Paneth cells originate in the stem cell region near the bottom of the gland and release a large number of secretory granules containing antimicrobials. The antimicrobial-rich granules are discharged into the crypt lumen and prevent microbial invasion of the crypt and defend the gland stem cells from microbial damage. We examined the global gene expression profiles in crypt IECs using the Clariom S sDNA array. We analyzed mRNA panels of antimicrobial peptides (AMPs) produced in CSN8ΔIEC and CSN8fl/fl mice. To test whether CSN8 deficiency triggers dysbiosis via a defect in the production of AMPs, Small intestinal crypts from CSN8ΔIEC and CSN8fl/fl mice were isolated for RNA extraction and hybridization on Affymetrix microarrays. In brief, the small intestine was removed. Using a microscope cover slide, the gut lumen was firmly scraped to remove villi and mucus. Intestines were cut into 5 mm pieces and shaken in Hank's balanced salt solution (HBSS) two times and then placed in HBSS containing 10 mM EDTA on ice for 30 min. Tissue pieces were shaken and the collected contents were filtered twice through a 70µm strainer to remove villous material. At this point, the suspension was mainly composed of crypts