TABLE 2.
Overview of pyrosequencing data sets for 16S rRNA and cbbM transcripts after normalizationa
| Sample and mo | Gene | No. of sequences | Coverage | Inverse Simpson's index (1/D) | No. of observed OTUs | No. of estimated OTUs (chao) | No. of rare OTUs (singletons) | Shannon index |
|---|---|---|---|---|---|---|---|---|
| H4-3 Nov | 16S rRNA | 7,317 | 0.92 | 9.16 | 797 | 3,062 | 727 (610) | 3.36 |
| H4-3 Apr | 16S rRNA | 7,317 | 0.92 | 13.79 | 784 | 2,612 | 695 (571) | 3.74 |
| H4-1 Nov | 16S rRNA | 7,317 | 0.95 | 4.27 | 539 | 1,755 | 479 (395) | 2.65 |
| H4-1 Apr | 16S rRNA | 7,317 | 0.94 | 6.04 | 644 | 1,940 | 555 (453) | 3.19 |
| H5-1 Nov | 16S rRNA | 7,317 | 0.96 | 3.85 | 401 | 1,268 | 355 (289) | 2.28 |
| H5-1 Apr | 16S rRNA | 7,317 | 0.85 | 60.25 | 1,537 | 5,301 | 1,341 (1,115) | 5.46 |
| H4-3 Nov | cbbM | 4,830 | 0.99 | 10.21 | 97 | 250 | 64 (53) | 2.81 |
| H4-3 Apr | cbbM | 4,830 | 0.99 | 1.61 | 63 | 141 | 47 (38) | 0.97 |
| H4-1 Nov | cbbM | 4,830 | 0.99 | 7.78 | 95 | 195 | 58 (43) | 2.59 |
| H4-1 Apr | cbbM | 4,830 | 0.99 | 1.97 | 71 | 102 | 45 (30) | 1.41 |
| H5-1 Nov | cbbM | 4,830 | 0.99 | 5.95 | 93 | 159 | 59 (42) | 2.32 |
| H5-1 Apr | cbbM | 4,830 | 0.99 | 4.50 | 60 | 192 | 41 (33) | 1.97 |
a
Sequence distance cutoffs for OTU assignment were 0.03 (nucleic acid level) for 16S rRNA genes and 0.05 (protein level) for cbbM.