Enteroendocrine cells sense bacterial tryptophan catabolites to activate enteric and vagal neuronal pathways

RNA-seq of isolated zebrafish enteroendocrine cells and other intestinal epithelium cells from germ-free (GF) and conventionalized (CV) zebrafish Overall design: CV and GF TgBAC(cldn15la:EGFP); Tg(neurod1:TagRFP) 8 dpf zebrafish larvae were used for Flow Activated Cell Sorting (FACS) to isolate zebrafish EECs and other IECs. Samples from three independent experimental replicates were performed. 250-580 EECs (n=3 for each CV and GF group) and 100 IECs (n=3 for each CV and GF group) from each experiment were used for library generation and RNA sequencing.