Table 2. Summary of high-throughput sequencing parameters.
| Subject | Sample∧ | n seqs# | Observed OTUs* | Chao† | Ace† | SHN** | GC$ |
| 2 | −1m | 16395 | 1032 | 1673 (1538, 1845) | 2389 (2233, 2564) | 4.2 | 0.97 |
| −1w | 9028 | 701 | 1145 (1030, 1299) | 1473 (1361, 1603) | 4.63 | 0.96 | |
| +3m | 13442 | 1154 | 1848 (1707, 2027) | 2474 (2325, 2642) | 5 | 0.96 | |
| 3 | −1m | 6548 | 354 | 548 (482, 649) | 572 (509, 662) | 3.11 | 0.98 |
| −1w | 8729 | 371 | 534 (476, 626) | 546 (493, 620) | 3.94 | 0.98 | |
| +1w | 7988 | 435 | 620 (561, 706) | 818 (744, 909) | 3.35 | 0.98 | |
| 4 | −1m | 5887 | 416 | 679 (596, 800) | 928 (838, 1036) | 3.47 | 0.97 |
| −1w | 8525 | 354 | 564 (493, 672) | 811 (728, 913) | 2.3 | 0.98 | |
| +1w | 6700 | 249 | 414 (348, 525) | 480 (423, 554) | 2.07 | 0.98 | |
| 5 | −1m | 8794 | 661 | 1082 (972, 1231) | 1407 (1294, 1539) | 4.2 | 0.96 |
| −1w | 9071 | 387 | 576 (513, 670) | 718 (651, 802) | 2.53 | 0.98 | |
| +3m | 8830 | 761 | 1093 (1009, 1205) | 1169 (1083, 1277) | 4.7 | 0.96 | |
| 7 | −1m | 9914 | 565 | 1068 (925, 1267) | 1427 (1304, 1571) | 3.85 | 0.97 |
| −1w | 8842 | 359 | 553 (488, 651) | 730 (656, 821) | 2.55 | 0.98 | |
| +3m | 12470 | 464 | 712 (635, 825) | 885 (809, 978) | 3.44 | 0.98 | |
| 8 | −1m | 901 | 163 | 273 (221, 370) | 310 (268, 367) | 4.28 | 0.92 |
| −1w | 9240 | 683 | 1145 (1029, 1302) | 1542 (1421, 1683) | 3.81 | 0.96 | |
| +1w | 6505 | 374 | 619 (537, 742) | 829 (744, 933) | 3.59 | 0.97 | |
| 9 | −1m | 8540 | 442 | 723 (632, 856) | 870 (791, 967) | 3.88 | 0.98 |
| −1w | 8666 | 567 | 879 (790, 1002) | 914 (832, 1021) | 4.14 | 0.97 | |
| +1m | 5882 | 148 | 231 (192, 304) | 294 (251, 353) | 1.55 | 0.99 | |
| 11 | −1m | 9081 | 523 | 958 (828, 1145) | 1216 (1109, 1341) | 4.17 | 0.97 |
| −1w | 4817 | 281 | 404 (354, 486) | 404 (363, 466) | 4.02 | 0.98 | |
| +1w | 10114 | 546 | 853 (766, 972) | 889 (807, 996) | 3.6 | 0.97 | |
| 13 | −1m | 11892 | 774 | 1296 (1169, 1464) | 1770 (1638, 1921) | 3.92 | 0.97 |
| −1w | 11634 | 912 | 1453 (1331, 1610) | 1946 (1812, 2098) | 4.65 | 0.96 | |
| +1m | 9829 | 630 | 1063 (947, 1220) | 1531 (1403, 1679) | 3.96 | 0.97 | |
| 15 | −1m | 10265 | 994 | 1519 (1403, 1666) | 1953 (1829, 2095) | 4.98 | 0.96 |
| −1w | 12091 | 764 | 1258 (1136, 1419) | 1550 (1437, 1681) | 4.02 | 0.97 | |
| +1w | 8683 | 719 | 1128 (1025, 1265) | 1431 (1325, 1556) | 4.35 | 0.96 | |
| A | A | 2256 | 141 | 239 (192, 327) | 346 (291, 420) | 2.79 | 0.97 |
| A +3m | 554 | 74 | 120 (95, 176) | 138 (105, 205) | 2.47 | 0.93 | |
| B | B | 8077 | 226 | 309 (274, 370) | 390 (346, 449) | 2.51 | 0.99 |
| B +3m | 7659 | 307 | 459 (404, 545) | 475 (423, 548) | 1.91 | 0.98 | |
| C | C | 1801 | 239 | 382 (327, 472) | 510 (447, 592) | 3.91 | 0.94 |
| C +3m | 10951 | 531 | 827 (737, 957) | 976 (897, 1071) | 4.02 | 0.98 | |
| H | H | 4289 | 368 | 611 (530, 731) | 797 (717, 897) | 3.86 | 0.96 |
| H +3m | 6551 | 639 | 1037 (932, 1180) | 1328 (1224, 1450) | 4.31 | 0.95 | |
| W | W | 6617 | 344 | 542 (472, 649) | 536 (480, 616) | 3.31 | 0.98 |
| W +3m | 4116 | 499 | 852 (750, 996) | 1052 (957, 1167) | 4.31 | 0.94 | |
| Average: | – | 8054 | 504 | – | – | 3.64 | 0.96 |
#
number of quality sequences obtained for a given sample.
*
number of observed operational taxonomic units.
**
Shannon diversity index.
$
Good’s coverage; C = 1 n1/N, where n1 is the number of OTUs that have been sampled once, and N is the total number of sequences.
†
Calculated with Mothur at the 3% distance level. Values in brackets are 95% confidence intervals as calculated by Mothur.
∧
For subjects who underwent colonoscopy: −1m, −1w, sample obtained one month, one week pre-colonoscopy, +1w, +1m, +3m, sample obtained 1 week, one month, or 3–6 months post-colonoscopy, respectively. For subjects who did not undergo colonoscopy: +3m, sample obtained 3–6 months after the first sample.