Additional file 1: Figure S1. Metadata analysis of bacterial ASVs. (A) Multidimensional scaling (MDS) plot of the unweighted UniFrac distance with normal confidence ellipses. Expanded version shows eighteen samples encapsulated by the confidence ellipse of the buffer control samples (B) Output of MaAslin and random forest analysis. (C) Important ASVs and their statistical significance as assessed by MaAslin and random forest. (D) Heatmap of MaAslin identified ASVs for mothers and infants. (E) ROC curves and AUC measures for delivery route and mother/infant classification using random forest and pROC packages in R. Pseudo-probabilities are plotted on graph using Out-Of-Bag (OOB) sample tree classification votes. Only infant data used in vaginal vs. C-section classification while both mother and infant data used for mother vs. infant classification. (F) Weighted UniFrac pairwise comparisons. Statistical significance assessed by Mann-Whitney, and Kruskal-Wallis with Dunnâ€™s multiple correction (feeding type: breastmilk vs. formula; breastmilk vs. mix; formula vs. mix). (G) Weighted UniFrac pairwise comparisons for related mother infant pairs. Statistical significance assessed by Kruskal-Wallis and Mann-Whitney.