Table 5.
Phylogenetic identification and distribution of bacterial sequences retrieved from 16S rRNA DGGE gel. Identification of the dominant bands in the PCR-DGGE fingerprinting profiles (marked in Figure 1) and their distribution in the three different interconnected pools, P1, P2 and P3, of the hot spring system.
| Band | Class (RDP) | Closest Relative (accession number) | % | Environments | Closest Type Strain or Described Cultivable Strain (accession number) | % | Pool | ||
|---|---|---|---|---|---|---|---|---|---|
| P1 | P2 | P3 | |||||||
| 12 | Alphaproteobacteria | Uncultured bacterium (DQ834212) | 99 | Hot springs, Yellowstone National Park | Acidicaldus organivorans (AY140238) | 98 | X | X | X |
| 13 | Alphaproteobacteria | Uncultured bacterium (DQ834212) | 99 | Hot springs, Yellowstone National Park | Acidicaldus organivorans (AY140238) | 99 | X | X | X |
| 1, 2 | Betaproteobacteria | Ralstonia pickettii (FR873796) | 99 | Water samples | Ralstonia pickettii (AY741342) | 99 | X | X | X |
| 15 | Actinobacteria | Acidimicrobium sp. (AY140240) | 99 | Geothermal sites, Yellowstone National Park | Acidimicrobium ferrooxidans (CP001631) | 98 | X | X | X |
| 4, 5 | Bacilli | Geobacillus debilis (AB548612) | 99 | High temperature compost | Geobacillus debilis (AJ564616) | 99 | X | X | X |
| 9 | Clostridia | Uncultured Bacillus sp. (EU250948) | 89 | High temperature compost | Thermovenabulum ferriorganovorum (AY033493) | 88 | X | X | X |
| 14 | Clostridia | Uncultured bacterium (AF523921) | 94 | Forested wetland | Sulfobacillus benefaciens (EF679212) | 90 | X | X | X |
| 6 | Aquificae | Uncultured Hydrogenobaculum sp.(EF156602) | 99 | Norris Geyser, Yellowstone National Park | Hydrogenobaculum acidophilum (D16296) | 98 | X | ||
| 10, 11 | Aquificae | Uncultured Hydrogenophilus sp. (EF156602) | 98 | Norris Geyser, Yellowstone National Park | Hydrogenobaculum acidophilum (D16296) | 97 | X | X | X |
| 3 | Unclassified Bacteria | Uncultured Rhizobiales (JF317890) | 98 | Terrestrial hot spring, 85 °C, pH 5.5 | Ignavibacterium album (AB478415) | 85 | X | ||
| 7, 8 | Unclassified Bacteria | Uncultured bacterium (EF464600) | 96 | Acidic mine tailings (pH 3.5-5) | Thermosinus carboxydivorans (AAWL01000046) | 84 | X | X | |
%: percent of identity between the DGGE band sequence and the closest relative sequence in GeneBank. Environment: environment of origin of the closest relative sequence. X: presence of the band in the DGGE profile of each sample; in bold are indicated the bands that were actually sequenced.