TABLE 4.
Gene and site | No. of clones sequenced | No. of OTU | Shannon index | Diversityb | Richnessc | No. of singletons | Coverage (%) |
---|---|---|---|---|---|---|---|
nirK | |||||||
UND | 28 | 13 | 2.3 (1.9-2.6) | 2.5 | 20 (13-54) | 6 | 100d |
R89 | 28 | 12 | 2.3 (1.8-2.5) | 2.2 | 22 (14-66) | 7 | 69 |
R97 | 25 | 11 | 2.0 (1.7-2.4) | 1.9 | 21 (13-65) | 7 | 86 |
R00 | 30 | 16 | 2.4 (1.9-2.8) | 2.1 | 38 (21-102) | 12 | 72 |
R01 | 24 | 12 | 2.3 (1.9-2.6) | 2.4 | 19 (13-48) | 7 | 45 |
R03 | 23 | 12 | 2.2 (1.9-2.6) | 2.3 | 26 (15-79) | 8 | 71 |
All | 158 | ||||||
nirS | |||||||
UND | 21 | 8 | 1.8 (1.4-2.1) | 1.8 | 11 (8-31) | 4 | 48 |
R89 | 17 | 10 | 2.2 (1.8-2.5) | 2.7 | 15 (11-39) | 6 | 56 |
R97 | 15 | 16 | 2.7 (2.4-3.0) | 3.7 | 32 (20-80) | 12 | 67 |
R00 | 27 | 16 | 2.6 (2.2-2.9) | 2.8 | 82 (38-212) | 12 | 76 |
R01 | 15 | 12 | 2.4 (2.1-2.7) | 3.1 | 16 (13-34) | 7 | 90 |
R03 | 22 | 18 | 2.8 (2.5-3.1) | 3.8 | 53 (27-144) | 15 | 45 |
All | 117 |
Estimates of OTU, Shannon index, diversity, and richness are all based on 3% differences in nucleic acid sequence alignments. Values in parentheses are 95% confidence intervals as calculated by DOTUR (28).
Sample-size-independent estimate of diversity based on negative natural log transformation of Simpson's index values as calculated in DOTUR.
Chao1 values, a nonparametric estimate of species richness.
Coverage values for distance = 0.01, as calculated by ∫-LIBSHUFF (27).