Extended Data Fig. 1: Biogeography of male SPF mice.
a – Schematic outlining the 15 sampling sites used in this study: one site in the stomach, 10 sites in the small intestine (three in the duodenum, four in the jejunum and three in the ileum), and four sites in the large intestine (in the cecum and in the ascending, transverse and descending colon). b – Repartition of MetaCyc chemical classes among all 128 metabolites measured with our LC-TOF-MS method used in this study (Supplementary Table ST1). c – Hierarchical clustering analysis of metabolite abundances from intestinal mucus of male SPF mice. Abundances for all 128 quantified metabolites are shown as z-scores of normalized concentrations averaged from five mice, across the 15 sampling sites. The clustering was performed based on Euclidian distances on luminal samples (Fig. 1a) and resulted in the identification of three main clusters, corresponding to the three main known physiological regions of the digestive tract, namely stomach, small and large intestine. In this heatmap here, metabolites along the y-axis are sorted according to the order from Fig. 1a, for comparison. Metabolites in the three main clusters are color-coded according to MetaCyc (as in S1b; Supplementary Table ST1). d – Metabolite concentrations of arginine, ornithine and spermidine in SPF luminal content and mucus large intestinal samples. Plotted are 20 data points (four large intestine sites, five male mice), boxplots show median metabolite concentration with a thicker mark, 25th and 75th percentile are denoted by the box, and whiskers extend to the most extreme data points not considered outliers.
