TABLE 2.

Diversity metrics

Sample	No. of OTUs observed	Coverage (%)a	Diversity index			% most abundant OTU	No. of ubiquitous OTUsd	% ubiquitouse
			Chaob	Shannonc	Inverse Simpsonb
1.1	172	98.4	395 (293–582)	2.44 ± 0.05	4.0 (3.8–4.1)	48.2	31	13.5
1.2	103	99.0	246 (168–416)	1.86 ± 0.04	3.6 (3.5–3.7)	37.7	22	8.9
1.3	117	99.1	238 (173–379)	2.66 ± 0.04	7.8 (7.6–8.1)	22.0	27	8.9
1.4	196	98.1	415 (322–578)	3.39 ± 0.04	17.5 (16.8–18.2)	13.7	28	33.2
2.1	72	99.4	117 (90–183)	2.15 ± 0.04	5 (4.8–5.2)	36.9	22	42.1
2.2	89	99.4	155 (116–251)	1.70 ± 0.05	2.6 (2.5–2.7)	59.4	22	72.6
3.1	118	98.8	223 (173–319)	1.79 ± 0.04	3.1 (3.0–3.2)	52.4	19	55.7
3.2	117	99.1	253 (177–424)	2.71 ± 0.04	8.7 (8.4–9.0)	22.8	23	18.5
4	105	99.2	195 (144–312)	1.95 ± 0.05	3.4 (3.2–3.5)	50.3	24	55.6
5	144	99.0	217 (180–292)	3.23 ± 0.04	13.7 (13.1–14.4)	19.4	19	14.1
6	128	99.1	183 (155–241)	2.86 ± 0.04	10.5 (10.1–10.9)	18.6	24	16.5
7	298	97.2	678 (535–908)	3.73 ± 0.05	17.7 (16.9–18.7)	14.7	23	16.9
8	63	99.5	99 (78–153)	1.54 ± 0.04	3.0 (2.9–3.1)	51.5	18	79.6
9	92	99.1	228 (152–399)	2.10 ± 0.04	5.1 (4.9–5.2)	33.6	18	42.6
10	109	99.4	142 (123–186)	2.63 ± 0.04	7.2 (6.9–7.4)	26.6	21	4.8
Mean	128.2	98.9	252.3	2.45	7.52	33.9	22.7	32.2

^aGood’s coverage index (85).

^bChao and inverse Simpson values are estimates, with 95% confidence intervals in parentheses.

^cShannon values are means, and the ± value indicates the width of the 95% confidence interval.

^d“Ubiquitous” OTUs are those found in more than half of samples.

^eThe percentage of total sequences in each sample that were from the 32 ubiquitous OTUs.