Collection media and delayed freezing effects on microbial composition of human stool

Microbiome

Table 1 Technical reproducibility, estimated as intraclass correlation (ICC) coefficient and UniFrac distance-based R ², under different conditions and time points

	Relative^a abundance	Time = 0				Time = 3 days			Time = 7 days
	Relative^a abundance	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

ISSN: 2049-2618