Fig. 10

Clustering of ^HMbmice communities: pre-antibiotics, post-antibiotics, and following recovery from C. difficile infection based upon principal coordinates analysis (PCoA) of Bray-Curtis dissimilarities. ^HMbMouse communities that have undergone 3, 4, or 5 days of antibiotic treatment (3 day, 4 day, 5 day) separate clearly from pre-antibiotic or recovered groups, though do not form distinct clusters of their own as determined by the gap statistic. Communities that have recovered from antibiotic assault only (5 day recov B) and antibiotic assault plus C. difficile invasion (3 day recov, 4 day recov, 5 day recov) return to a pre-antibiotic-like state as evidenced by the close grouping of these communities