The purpose of this study was to elucidate potential effects of fxr mutation on the functional specification of intestinal epithelial cells. To do this, we sorted GFP-positive cells from TgBAC(cldn15la:GFP) transgenics of either fxr+/+ or fxr-/- zebrafish larvae at 6 days post-fertilization reared under conventional conditions, and subjected them to 10X Genomics single-cell RNA-seq. These results provided a cellular atlas of the larval zebrafish intestinal epithelium and uncovered roles for Fxr in transcriptional and differentiation programs in ileal and other cell types.

Citation: Wen, J., Padilla Mercado, G., Volland, A., Doden, H.L., Lickwar, C.R., Crooks, T., Kakiyama, G., Kelly, C., Cocchiaro, J.L., Ridlon, J.M., and Rawls, J.F. (2021) Fxr signaling and microbial metabolism of bile salts in the zebrafish intestine. Science Advances 7(30), eabg1371. [PMCID: PMC8302129, PMID: 34301599]

Raw data can be accessed at the NCBI GEO Database: GSE173570

Keywords: fxr, nr1h4, farnesoid X receptor, zebrafish, Danio rerio, intestine, gut, ileum, ileocyte, cldn15la, bile acid, bile salt