Fig. 4

Bile acid and microbiota profiles are strongly correlated. a Co-inertia analysis of the microbiota and bile-acid based PCoAs from Additional file 1: Figures S1 and S4. Circles: location of sample is based on microbiota data; end of lines: location of sample is based on bile acid data; the length of each line is proportional to the difference between the bile acid and microbiota data; RV: measure of similarity on a scale from 0 to 1, the closer to 1, the greater the similarity between the two datasets. b Clusters of bacteria are strongly associated with bile acid levels, particularly primary (red column bar) and secondary and tertiary bile acids (green column bar). Shown is the heatmap of the Spearman correlations between the level of bile acids and bacterial genus log-ratio abundance (dark blue: positive correlation, white: negative correlation; scale in legend top-left). Column annotation as in legend top-right; row annotation (from left to right): 1 Fold change of bacterial abundance between patients pre-FMT and the donors (colours as in Fig. 2). 2-6 Spearman correlation coefficient between bacterial genera and combined bile acids. Dark green: positive correlation; white: negative correlation. From left to right: T, ST, P, GlyCon and TauCon. 7 CAG-membership for each bacterial genus (colours as in Fig. 2). c and d Network plots of bacterial genera. The sign of the Spearman correlation coefficient with primary faecal bile acids (c) and secondary and tertiary bile acids (d) is indicated for each genus. Upward-facing triangle: statistically significant positive correlation. Circle: not statistically significantly correlated. Downward facing triangle: statistically significant negative correlation. Colours of circles indicate CAG-membership of bacterial genera; colour code as in Fig. 2. The size of the circle or triangle is proportional to the mean relative abundance of the represented genus from all samples