Table 1. Comparison of phylotypes coverage and diversity estimation of the 16S rRNA gene libraries for individuals at 97% similarity from the sequencing analysis.
| Sample | No. of readsa | No. of OTUsb | Coverage (%)c | Richness estimatord | Diversity indexd | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| ACE | 95% CI | Chao | 95% CI | Shannon | 95% CI | Simpson | 95% CI | ||||
| control | 147205 | 299 | 99.99 | 304 | (301, 315) | 306 | (301, 324) | 4.01 | (4.00, 4.02) | 0.0345 | (0.0342, 0.0348) |
| DSS | 147205 | 283 | 99.99 | 302 | (292, 322) | 304 | (291, 336) | 3.35 | (3.34, 3.36) | 0.0785 | (0.0777, 0.0793) |
| DSS+ CaA | 147205 | 316 | 99.99 | 325 | (320, 338) | 323 | (318, 338) | 3.25 | (3.24, 3.26) | 0.1054 | (0.1044, 0.1065) |
a
The samples were rarefied to 147205 reads per group for downstream analysis.
b
The operational taxonomic units (OTUs) were defined at the 97% similarity level.
c
The coverage percentage was calculated using Good's method.
d
The richness estimators (ACE and Chao) and diversity indices (Shannon and Simpson) were calculated using the mothur program.