Table 1.

Technical reproducibility, estimated as intraclass correlation (ICC) coefficient and UniFrac distance-based R ², under different conditions and time points

	Relativea abundance	Time = 0				Time = 3 days			Time = 7 days
		No media	RNAlater alone	RNAlater + Kanamycin	RNAlater + Ciprofloxacin	RNAlater alone	RNAlater + Kanamycin	RNAlater + Ciprofloxacin	RNAlater alone	RNAlater + Kanamycin	RNAlater + Ciprofloxacin
Actinobacteria	2.1 %	0.98	0.96	0.97	0.92	0.96	0.98	0.89	0.95	0.96	0.99
Bacteroidetes	14.6 %	0.71	0.93	0.84	0.91	0.93	0.88	0.85	0.94	0.97	0.86
Firmicutes	75.1 %	0.97	0.93	0.82	0.89	0.94	0.89	0.84	0.95	0.97	0.87
Proteobacteria	0.6 %	0.95	0.94	0.83	0.32	0.98	0.83	0.90	0.94	0.90	0.88
PD_WT		0.87	0.95	0.87	0.82	0.75	0.47	0.69	0.48	0.72	0.40
Chao1		0.81	0.91	0.74	0.72	0.66	0.25	0.55	0.30	0.59	0.17
Observed_species		0.83	0.92	0.82	0.74	0.74	0.31	0.65	0.46	0.65	0.16
Shannon		0.95	0.96	0.92	0.80	0.89	0.70	0.87	0.76	0.83	0.52
Unweighted.PCoA1		0.96	0.97	0.94	0.95	0.92	0.81	0.93	0.91	0.94	0.83
Unweighted.PCoA2		0.80	0.96	0.87	0.75	0.87	0.61	0.86	0.75	0.84	0.38
Unweighted.PCoA3		0.82	0.89	0.89	0.86	0.89	0.76	0.66	0.86	0.93	0.77
Weighted.PCoA1		0.74	0.95	0.83	0.94	0.92	0.92	0.87	0.90	0.97	0.88
Weighted.PCoA2		0.97	0.97	0.96	0.97	0.96	0.96	0.94	0.97	0.97	0.98
Weighted.PCoA3		0.90	0.91	0.88	0.90	0.91	0.76	0.87	0.95	0.95	0.96
Unweighted UniFrac		0.70	0.75	0.76	0.67	0.79	0.64	0.72	0.70	0.74	0.66
Weighted UniFrac		0.91	0.97	0.92	0.80	0.97	0.89	0.97	0.93	0.91	0.81

^aMedian of the relative abundance across all subjects