Table 2.
Species richness and diversity indices calculated for each sample in Mothur (Schloss et al., 2009) for sequences with OTU identity threshold at 97%.
| Threshold | Index | ||||
|---|---|---|---|---|---|
| 0.03 | Richness | Diversity | |||
| Sample | Sobs | Chao1 | ACE | Shannon | Invsimpson |
| nb_seq | 4543 | ||||
| Contr-A | 279.11 | 526.96 | 733.44 | 3.39 | 11.18 |
| GoC-A-I-1 | 1196.32 | 2784.75 | 4440.27 | 5.64 | 52.92 |
| GoC-A-I-2 | 899.13 | 2002.70 | 3446.10 | 4.99 | 28.71 |
| GoC-A-II-1 | 589.27 | 851.89 | 912.04 | 5.22 | 85.76 |
| GoC-A-II-2 | 1678.54 | 4108.65 | 7117.76 | 6.39 | 158.41 |
| GoC-A-III-1 | 740.86 | 1558.90 | 2554.81 | 4.90 | 40.70 |
| GoC-A-III-2 | 1108.94 | 2297.72 | 3608.17 | 5.30 | 32.70 |
| GoC-A-IV-1 | 1265.55 | 2957.10 | 5319.83 | 5.71 | 65.85 |
| GoC-A-IV-2 | 1396.16 | 3102.94 | 4999.33 | 5.90 | 73.61 |
| EM-A-I-1 | 916.56 | 1984.98 | 3157.16 | 5.23 | 45.95 |
| EM-A-I-2 | 1058.51 | 2370.38 | 3736.46 | 5.22 | 35.52 |
| MAR-A-I-1 | 154.85 | 207.59 | 234.98 | 3.02 | 9.74 |
| MAR-A-I-2 | 216.49 | 421.47 | 617.40 | 2.69 | 6.24 |
| MAR-A-II-1 | 644.48 | 1238.09 | 1883.15 | 4.42 | 21.70 |
| MAR-A-II-2 | 460.93 | 969.89 | 1496.23 | 4.02 | 18.40 |
| MAR-A-III-1 | 1041.82 | 2283.52 | 3766.65 | 5.20 | 29.86 |
| MAR-A-III-2 | 858.28 | 2079.23 | 3740.74 | 4.41 | 11.43 |
| HMMV-A-I-1 | 598.65 | 1149.13 | 1601.53 | 4.37 | 21.37 |
| HMMV-A-I-2 | 499.62 | 862.40 | 1135.98 | 4.15 | 18.58 |
| HMMV-A-II-1 | 625.12 | 1315.23 | 2082.32 | 4.49 | 25.48 |
| HMMV-A-II-2 | 673.01 | 1283.04 | 1924.22 | 4.62 | 31.34 |
| MAR-A-IV-1 | 46.91 | 126.08 | 192.93 | 0.81 | 1.42 |
| MAR-A-IV-2 | 46.19 | 102.66 | 174.43 | 0.98 | 1.60 |
| MAR-A-V-1 | 276.45 | 604.08 | 830.39 | 3.43 | 11.72 |
| MAR-A-V-2 | 279.00 | 508.53 | 852.31 | 3.43 | 11.92 |
| MAR-A-V-C | 237.16 | 503.26 | 763.51 | 3.15 | 9.49 |
| GoC-W-I-1 | 282.77 | 433.37 | 535.60 | 4.11 | 27.14 |
| GoC-W-I-2 | 379.09 | 656.86 | 900.68 | 3.84 | 12.01 |
| GoC-W-II-1 | 782.17 | 1722.28 | 2878.57 | 4.61 | 19.39 |
| GoC-W-II-2 | 709.60 | 1440.33 | 2247.49 | 4.39 | 18.23 |
| GoC-W-III-1 | 529.85 | 1069.75 | 1658.48 | 4.53 | 30.35 |
| GoC-W-III-2 | 536.81 | 1123.29 | 1637.86 | 4.71 | 39.90 |
| GoC-W-IV-1 | 391.71 | 714.70 | 1096.37 | 4.48 | 42.43 |
| GoC-W-IV-2 | 282.05 | 460.62 | 510.23 | 3.67 | 12.68 |
| EM-W-I-1 | 367.52 | 636.47 | 824.42 | 4.40 | 39.49 |
| EM-W-I-2 | 408.57 | 741.91 | 1013.12 | 4.48 | 36.14 |
| MAR-W-I-1 | 178.22 | 308.73 | 435.47 | 2.75 | 5.51 |
| MAR-W-I-2 | 97.21 | 152.68 | 168.77 | 2.28 | 4.06 |
| MAR-W-II-1 | 178.81 | 264.22 | 308.09 | 3.62 | 20.69 |
| MAR-W-II-2 | 257.03 | 439.33 | 542.02 | 3.26 | 8.00 |
| MAR-W-III-1 | 691.66 | 1391.93 | 2370.47 | 4.60 | 28.79 |
| MAR-W-III-2 | 580.78 | 1105.29 | 1658.46 | 4.43 | 25.42 |
| HMMV-W-I-1 | 291.77 | 568.01 | 833.71 | 3.54 | 13.81 |
| HMMV-W-I-2 | 407.70 | 794.03 | 1054.50 | 4.12 | 20.23 |
| HMMV-W-II-1 | 347.54 | 625.72 | 947.47 | 3.59 | 10.12 |
| HMMV-W-II-2 | 434.71 | 795.56 | 1031.26 | 3.99 | 13.96 |
| MAR-W-IV-1 | 77.80 | 106.13 | 109.30 | 1.48 | 2.54 |
| MAR-W-IV-2 | 354.33 | 687.95 | 995.05 | 3.65 | 14.37 |
| EM-W-II-1 | 154.90 | 266.93 | 321.80 | 2.97 | 10.54 |
| MAR-W-V-1 | 139.41 | 291.52 | 569.19 | 2.60 | 7.75 |
| MAR-W-V-2 | 116.56 | 238.70 | 383.18 | 2.43 | 6.92 |
| MAR-W-V-C | 201.96 | 442.01 | 695.70 | 2.67 | 6.64 |
Sample IDs are described in Table 1.