Fig. 2

WSS Analysis for FMT donor–recipients. a Scatter plot of the pairwise sample comparisons of species from the FMT. WSS scores were calculated for all possible sample pairs (donor–donor, donor–recipient post-FMT, and recipient post FMT-recipient post FMT). The number of dots for species varies because not all samples contain every species (at depth cutoff > 5X). The blue dots represent FMT-unrelated sample pairs, whereas red and orange points represent FMT-related sample pairs (where both samples were derived from a particular FMT transplant). Orange dots represent related sample pairs with WSS scores below the boundary cutoff, and red dots represent related sample pairs with WSS scores above the boundary cutoff (see Supplementary Data). Grey horizontal bars mark the WSS score boundary cutoff derived from the HMP dataset (see Supplementary Table 7). b The WSS for different FMT donor–recipients post transplant. Donor and recipient post transplant samples from seven different FMT were analyzed (FMT A-F). DA-T1A refers to donor A compared to recipient FMT A at time 1; DA-T2A refers to donor A compared to recipient FMT at time 2. (These 2-year samples were only available for FMT-A and FMT-B). The transplant FMT-FG refers to two FMTs that used the same donor (DF, DG) for two separate recipients (F and G) FMT. The T1A-T2A and T1B-T2B are recipient-recipient comparisons at the two different time points. Red shaded boxes display WSS scores above the WSS boundary cutoff as determined by the classifier, suggesting shared microbial species between the two samples. The orange shaded boxes depict sample pairs where the WSS score was below the boundary cutoff. Empty boxes denote missing data that means sample pairs with sequence coverage or read depth too low to compare