Table 2.
LH-mcrA amplicon length of phylotypes and their abundance in mcrA gene clone libraries
| Phylotypea | nb | Amplicon length (bp) |
Abundance in librarye (%) |
|||
|---|---|---|---|---|---|---|
| Seqc | LH-mcrAd | Control (n = 46) | HD-2 (n = 46) | HD-5 (n = 46) | ||
| Unidentified cluster | ||||||
| LB14H05 | 4 | 470 | 466.4 | 0 | 2 | 7 |
| LB11A06 | 3 | 470 | 465.7 | 4 | 0 | 2 |
| LB11B05 | 3 | 470 | 466.4 | 4 | 2 | 0 |
| LB11B04 | 1 | 470 | 466.7 | 2 | 0 | 0 |
| LB11C05 | 1 | 470 | 464.9 | 2 | 0 | 0 |
| Total | 13 | 4 | 9 | |||
| Methanosarcinaceae | ||||||
| LB11A10 | 4 | 483 | 480.8 | 9 | 0 | 0 |
| Methanoculleus | ||||||
| LB11A01 | 48 | 488 | 482.5 | 22 | 48 | 35 |
| LB17C08 | 14 | 488 | 480.7 | 0 | 17 | 13 |
| LB11E10 | 7 | 488 | 482.7 | 2 | 9 | 4 |
| LB11C09 | 6 | 488 | 483.7 | 2 | 2 | 9 |
| LB14B01 | 4 | 488 | 484.1 | 0 | 4 | 4 |
| LB14B12 | 2 | 488 | 480.8 | 0 | 4 | 0 |
| LB14C10 | 1 | 488 | 483.8 | 0 | 2 | 0 |
| LB14D12 | 1 | 488 | 481.6 | 0 | 2 | 0 |
| LB17D12 | 1 | 488 | 482.6 | 0 | 0 | 2 |
| Total | 26 | 89 | 67 | |||
| Methanocorpusculum | ||||||
| LB11A05 | 6 | 488 | 484.8 | 11 | 0 | 2 |
| LB11D08 | 2 | 488 | 485.7 | 2 | 0 | 2 |
| Total | 13 | 0 | 4 | |||
| Methanogenium | ||||||
| LB11B08 | 15 | 488 | 485.0 | 22 | 2 | 9 |
| LB17D10 | 11 | 488 | 485.1 | 15 | 4 | 4 |
| LB11F10 | 1 | 488 | 484.9 | 2 | 0 | 0 |
| Total | 39 | 7 | 13 | |||
| Methanospirillum | ||||||
| LB17B03 | 2 | 488 | 485.3 | 0 | 0 | 4 |
| LB17G02 | 1 | 488 | 485.0 | 0 | 0 | 2 |
| Total | 0 | 0 | 6 | |||
a
Clone libraries were sequenced starting with the control library (LB11) and ending with the HD-5 library (LB17). Clone designations begin with LB11 if they were first found in library LB11.
b
Number of times that the phylotype was encountered across the three libraries.
c
Theoretical amplicon length from sequence alignment with the newly designed mcrA primers.
d
Experimental amplicon length determined by the LH-mcrA method.
e
Control, control sample, day 0 of SIP incubation; HD-2, high-density DNA fraction of [U-13C]acetate incubation at day 6; HD-5, high-density DNA fraction of [U-13C]acetate incubation at day 15.