Extended Data Fig. 5: Association between alpha diversity, strain engraftment, and Bray-Curtis dissimilarity with clinical outcome.
A. Absolute SGBs engrafted from the donor in non-responders compared to responders using shotgun metagenomic sequencing (n = 122 samples from n = 32 patients), p-value computed by Wilcoxon test (two-sided). B. Absolute SGBs count over time in responders compared to non-responders; top plot represents in the sum of all the SGB categories, data are presented as mean values ± SD, C. Bacterial biomass using qPCR analysis of the 16 s rRNA gene according to response and timepoint (n = 70 samples from n = 24 patients), p-value calculated by Non-parametric Mann–Whitney U test (two-sided), data are presented as mean values ± SEM and D. according to SGBs loss from baseline category obtained using the median value from the metagenomics analysis (n = 38 samples from n = 22 patients), p-value calculated by Non-parametric Mann–Whitney U test (two-sided), data are presented as mean values ± SEM. Top 50 lost SGBs post-FMT in responders for E. NSCLC (n = 62 samples from n = 13 patients) and F. melanoma (n = 71 samples from n = 13 patients). G. Relative abundance of Akkermansia muciniphila across relative abundance >77th percentile vs. <77th percentile pre vs. post-FMT in responders. Absolute lost SGBs in patients post-FMT according to H. donor and I. donor cluster. For box plots (A, G–I), the center line represents the median, box bounds represent the interquartile range (IQR), whiskers extend to 1.5 x IQR, and each dot represents an individual patient sample.
