Fig. 2

Shifts in the microbiome of samples collected prior (n = 62) and post- (n = 70) initiation of AZLI, samples on systemic therapies were filtered out. a Differences in Shannon diversity index prior to and post-initiation of AZLI as measured by a paired t test. b Bray-Curtis-based PCoA plot showing community-wide differences of samples collected prior (red) and post- (blue) initiation of AZLI. PERMANOVA reveals no community-wide differences between the samples collected prior to and post-initiation of AZLI (p = 0.52). c–d Paired t test revealed significant differences in the log abundance of individual OTUs in the samples collected prior vs post-initiation of AZLI, for organisms present in greater than 20% of samples being assessed