Fig. 2

ATT changes the intestinal bacterial community structure. a Community diversity in the naïve, TB, and TB + HRZ animal groups calculated from 16S sequences (W4–W20) using Chao1 (left) and Shannon (right) indices. Fecal collection time points are shown along the x-axis. Error bars indicate minimum and maximum values. Significance tests were performed between the corresponding time points in the naive and each experimental group (TB or TB + HRZ) and in a separate comparison between the TB and the TB + HRZ groups. Significant differences with respect to naive or TB are marked with a blue or red asterisks. *p < 0.05 (Wilcoxon rank-sum test). b Principal coordinate (PC) analysis of unweighted (top) and weighted (bottom) UniFrac distances of the sequences from the three groups. Sizes of spheres depict the time of sample collection as described in Fig. 1b. One sample each from W16 and W20 time points of the naïve group was not included in the analysis since these two samples formed an independent cluster separated from and inconsistent with the other clusters (For comparison, these samples are included, nevertheless, in Additional file 13: Figure S13)