Extended Data Fig. 8: Divisions between regional intestinal stem cells (ISCs).

a Jensen-Shannon Divergence between ISCs from segment pairs across the intestine, with segment pair order and hierarchical clustering based on divergence values between segments. Dotted red line indicates level of hierarchical tree of domain divisions. b,c Full-length murine intestinal tissue coiled from the proximal (outside) end to the distal (inside) end, probed with single-molecule ISH for select regional ISC marker genes (as in Fig. 5d) as indicated. Channels are shown both individually and merged with pseudocolouring. White boxes indicate insets. Scale bars are 2 mm, and 100 μm for insets. Similar results obtained with 3 mice. d Expression of regional ISC marker genes in absorptive lineage cells. Dot colour reflects average expression, dot size reflects the percent of cells of each type expressing the marker. 'Mature' and 'progenitor' refer to enterocyte state. e Expression of ISC region 1 genes (Gkn3 and Hmgcs2) and ISC region 3 genes (Bex1 and Hoxb6) across ISCs from 15 segments collected from the small intestines of mice fed chow, high-carbohydrate, or high-fat diets as indicated by colour. (n = 3 mice per diet group). ISC, intestinal stem cell; TA, transit amplifying.