Fig. 1

Community composition of germ-free mice gavaged with donor fecal microbiota. a Principal coordinate analysis of non-rarefied samples from donor (diamond) and mouse samples (circles) (r ² = 0.78). Legend: gray—T₀ mice, open—control mice, black—donor-gavaged mice. b Shannon indices of bacterial communities in donor and donor-gavaged mice rarefied to 50,456 sequence reads per sample. Shannon indices were averaged among all replicates (n = 3) and were significantly higher in donor samples than mice (P ≤ 0.001) by Tukey’s post hoc test. c Composition of abundant families in donor and donor-gavaged mice communities. Communities were rarefied to 50,456 sequences per sample and abundances of families were averaged among all replicates at each time point (n = 3). Error bars reflect SEM among replicates. Donor similarity refers to the percent of the community attributable to the donor community, as determined by SourceTracker