Table 2.
Diversity of the cmuA chloromethane dehalogenase gene in the phyllosphere of A. thaliana variants.
| OTU | Closest homolog (accession number) | Sequence identity (%) | Recovered sequencesa | ||
|---|---|---|---|---|---|
| WT | hol1 | HOL1-OX | |||
| OTU1 | Methylobacterium extorquens CM4 (AJ011316.1) | 99.8 | 2454 | 1 | 16448 |
| OTU2 | Hyphomicrobium sp. SAC-1 (AJ871015.1) | 98.8 | 459 | 1 | 3514 |
| OTU3 | Hyphomicrobium sp. MC1 (FN667867.2) | 99.8 | 103 | 1 | 2100 |
| OTU4 | Aminobacter ciceronei IMB-1 (AF307143) | 89.8 | 39 | 1 | 294 |
| OTU6 | Aminobacter ciceronei IMB-1 (AF307143) | 89.3 | 30 | 205 | 0 |
| OTU7 | Rhodobacteraceae bacterium 198 (AJ810827.1) | 99.3 | 21 | 0 | 234 |
| OTU9 | Rhodobacteraceae bacterium 179 (AJ810826.1) | 99.5 | 0 | 0 | 121 |
| OTU11 | Hyphomicrobium sp. SAC-1 (AJ871015.1) | 85.9 | 0 | 98 | 0 |
| OTU19b | Uncultured marine bacterium (AJ810832.1) | 91.0 | 0 | 7 | 14 |
| OTU20 | Hyphomicrobium sp. SAC-1 (AJ871015.1) | 87.0 | 0 | 0 | 22 |
| OTU22 | Hyphomicrobium sp. SAC-1 (AJ871015.1) | 87.0 | 22 | 0 | 0 |
| OTU28b | Uncultured marine bacterium (AJ810832.1) | 89.7 | 0 | 8 | 0 |
| OTU35 | Aminobacter ciceronei IMB-1 (AF307143) | 99.3 | 0 | 0 | 17 |
aNumbers of sequences recovered by pyrosequencing after PCR amplification from the same amount of leaf wash DNA preparation, averaged across 6 samples (technical duplicates of biological triplicates) for each A. thaliana variant.
bClosest cultivable chloromethane degraders were Hyphomicrobium sp. MC1 for OTU19 (77.0% sequence identity) and Methylobacterium extorquens CM4 for OTU28 (78.2%), respectively.