Table 2.
16S rDNA-V3 sequence similarities to closest relatives of DNA recovered from the respective bands in DGGE gels
| Class | Genus | Soil A | Soil B | Soil C | Accession umber for the nearest match | |||
|---|---|---|---|---|---|---|---|---|
|
| ||||||||
| Band(s) | S_ab score | Band(s) | S_ab score | Band(s) | S_ab score | |||
| Actinobacteria | Dietzia | - | - | - | - | 9,11 | 0.93–1.00 | AY211169 |
| Brevibacterium | - | - | - | - | 58,59 | 0.83–0.88 | AJ746164 | |
| uncultured bacterium | - | - | - | - | 10 | 0.84 | AY593453 | |
| Bacilli | Bacillus | - | - | - | - | 35, 36,37,38 | 0.80–0.84 | AM778699, DQ147593 |
| Lysinibacillus | - | - | - | - | 33,34 | 0.64–0.84 | KC465744 | |
| Anaerolineae | uncultured bacterium | - | - | 5 | 0.46 | - | - | JN434428 |
| Alphaproteobacteria | Rhizobium | - | - | 6 | 0.32 | - | - | JN688942 |
| uncultured bacterium | - | - | 7 | 0.48 | - | - | EU808178 | |
| Betaproteobacteria | Comamonas | - | - | 31 | 0.76 | - | - | AM503546 |
| Bordetella | - | - | - | - | 12 | 0.79 | FN691469 | |
| uncultured beta-Proteobacterium | 2 | 0.42 | - | - | - | - | AF063633 | |
| Gammaproteobacteria | Enterobacter | 15,18,20,45,48 | 0.74–0.89 | 4,23,29,32,53 | 0.47–0.84 | 13,57 | 0.77–0.91 | EU260145, GU271945 |
| Cronobacter | - | - | 27,30 | 0.79–0.83 | - | - | JQ936997 | |
| Citrobacter | 14,19,40,46,47 | 0.84–0.96 | 28 | 0.78 | - | - | FJ009572 | |
| Pantoea | 44 | 0.69 | 55 | 0.89 | 39 | 0.51 | AY315450 | |
| Marinobacter | 16 | 0.46 | - | - | - | - | GQ131648 | |
| Enterobacteriaceae bacterium | 1 | 0.34 | - | - | - | - | FJ348017 | |
| Rahnella | - | - | 26,51,52,54 | 0.60–0.86 | - | - | KJ997758 | |
| Pseudoalteromonas | - | - | 24, 25 | 0.42–0.48 | - | - | FJ357649 | |
| Acinetobacter | 3,17 | 0.67–0.85 | - | - | 56 | 0.80 | KM108483 | |
| Pseudomonas | 21,41,42,43 | 0.44–0.88 | 8,22,49,50 | 0.34–0.97 | - | - | FM161360, EF427772 | |
Bold of the band number are the bacterial strain from direct soil DNA
S_ab score of 1.0 is the perfect match