Fig. 2

Inflamed (Il10^−/−) vs. un-inflamed (WT) states influence E. coli mucosal colonization and the associated stool and mucosal microbiomes. Il10^−/− (blue) and WT (purple) mice were maintained under the same condition (7 E. coli isolates and FMT1, see Fig. 1). A CFUs of E. coli in stool over time, assessed by serial dilution plating. Dots and error bars respectively indicate the median with a 95% CI. B Abundances of Escherichia 16S sequences relative to total microbiota 16S sequences in stool at three time points and in distal colon mucosa at harvest. Data was normalized and log-transformed. Each symbol represents an individual mouse (B–F). Line is at mean, and p-values determined by Mann–Whitney test (* p < 0.05, **** p < 0.001). C, D PCoA based on Bray–Curtis distance for the stool and mucosal microbiota in WT and Il10^−/− mice harvested at sacrifice (p = 0.001, n = 9–17 mice per group). E, F Microbiome diversity as measured by Shannon index (p < 0.01, n = 9–17 mice per group) for the stool and mucosal microbiota in WT and Il10^−/− mice. Box and whisker plots show the median, first/third quartiles, and min/max index values