Table 3.
Phylogenetic affiliation of excised denaturing gradient gel electrophoresis bands from the Palos Vedes (PV) and Hudson River (HR) sediment cultures as shown in Fig. 7
| Bands* | Sequence length (bp) | Closest phylogenetic relative (accession no.) | Identity (%) | Phyla |
|---|---|---|---|---|
| PV1 | 181 | Uncultured bacterium (AJ306785) | 93.3 | Ambiguous |
| PV2 | 180 | Uncultured bacterium TSAC12 (AB186798) | 99.4 | Ambiguous |
| PV3 | 154 | Dehalococcoides sp. CBDB1 (AF230641) | 100 | Chloroflexi |
| PV4 | 174 | Uncultured bacterium SHA-94 (AJ306738) | 94 | Ambiguous |
| PV5 | 179 | Syntrophomonas sp. TB-6 (AB098336) | 94 | Firmicutes |
| PV6 | 153 | Uncultured bacterium SHD-245 (AJ278174) | 93 | Chloroflexi |
| PV7 | Chimeric | |||
| PV8 | 156 | Pelotomaculum sp. FP (AB159558) | 94.9 | Firmicutes |
| PV9 | 178 | Enterobacter sakazakii (AY752940) | 100 | γ-Proteobacteria |
| PV10 | 154 | Uncultured bacterium SJA-116 (AJ009487) | 96.7 | Chloroflexi |
| PV11 | 179 | Olavius algarvensis (AF328857) | 91.2 | δ-Proteobacteria |
| PV12 | 178 | Uncultured bacterium DSB-Dsa99-4 (AJ300510) | 92.5 | δ-Proteobacteria |
| PV13 | 172 | Cytophaga sp. (AB015525) | 93.3 | Bacteriodetes |
| HR1 | 153 | Capnocytophaga cynodegmi (X97245) | 91.1 | Bacteroidetes |
| HR2 | 174 | Capnocytophaga cynodegmi (X97245) | 92.1 | Bacteroidetes |
| HR3 | 155 | Dehalococcoides sp. CBDB1 (AF230641) | 100 | Chloroflexi |
| HR4 | 179 | Syntrophospora bryantii (M26491) | 92.1 | Firmicutes |
| HR5 | 179 | Syntrophospora bryantii (M26491) | 94.2 | Firmicutes |
| HR6 | 175 | Syntrophus acidotrophicus (U86447) | 90.8 | γ-Proteobacteria |
| HR7 | Sequence failed | |||
| HR8 | Sequence failed | |||
| HR9 | 157 | Clostridium sporogenes (AY442816) | 91.2 | Firmicutes |
| HR10 | 154 | Uncultured bacterium TDC-S1:29 (AF447148) | 100 | Unknown |
| HR11 | 173 | Flavobacterium mizutaii (AF361550) | 91.3 | Bacteroidetes |
| HR12 | 179 | Syntrophomonadaceae genomo sp. P1 (AY341821) | 85.3 | Firmicutes |
*
PV indicates bands derived from PV sediment cultures and HR indicates bands derived from HR sediment cultures.