TABLE 5.
DNA sequencing results of clones of PCR products obtained with the cel5, cel48, hydA, dsrA, and mcrA primer sets on a sample from the lignocellulose-based sulfate-reducing bioreactor
| Primer set and microorganism | BLASTX identity (% match)a | % of screened clones | GenPept accession no. |
|---|---|---|---|
| cel48 | |||
| Clostridium josui | Exoglucanase S, glycosyl hydrolase family 48 (75) | 14.3 | AAC38571 |
| Clostridium acetobutylicum ATCC 824 | Processive endoglucanase, glycosyl hydrolase family 48 (56) | 14.3 | NP_347547 |
| Clostridium cellulolyticum H10 | Glycoside hydrolase, family 48 (69) | 28.6 | ZP_01575465 |
| Clostridium cellulovorans | Exoglucanase S, glycosyl hydrolase family 48 (53-61) | 42.9 | AAC38571 |
| cel5 | |||
| Saccharophagus degradans 2-40 | Endoglucanase-like protein, glycoside hydrolase family 5 (45-59) | 46.7 | ABD81896 |
| Clostridium cellulovorans | Endoglucanase EngB, glycoside hydrolase family 5 (43) | 3.3 | AAA23231 |
| Flavobacterium johnsoniae UW101 | Hypothetical protein EUBSIR_0099, glycoside hydrolase family 5 (44) | 6.7 | ABQ03808 |
| Eubacterium siraeum DSM 15702 | Hypothetical protein EUBSIR_00991, glycoside hydrolase family 5 (52-53) | 43.3 | EDS01174 |
| hydA | |||
| Clostridium botulinum B1 strain Okra | [Fe] hydrogenase (72) | 3.7 | YP_001781395 |
| Clostridium cellulolyticum H10 | Hydrogenase, Fe only (75-82) | 7.4 | ZP_01573883 |
| Bacteroides capillosus ATCC 29799 | Hypothetical protein BACCAP 02746, iron hydrogenase large subunit, C-terminal domain (73) | 7.4 | ZP_02037133 |
| Thermosinus carboxydivorans Nor1 | Hydrogenase, Fe only (74) | 11.1 | EAX48145 |
| Pelotomaculum thermopropionicum SI | Hydrogenase subunit (63) | 11.1 | YP_001212560 |
| Clostridium bolteae ATCC BAA-613 | Hypothetical protein CLOBOL 01023, iron hydrogenase large subunit, C-terminal domain (60-74) | 22.2 | ZP_02083500 |
| Clostridium thermocellum | Hydrogenase-1(67-69) | 37.0 | AAD33071 |
| dsrA | |||
| Uncultured sulfate-reducing bacterium | Dissimilatory sulfite reductase alpha subunit (96) | 3.3 | AAQ7928 |
| Uncultured sulfate-reducing bacterium | Dissimilatory sulfite reductase alpha subunit (90-91) | 63.3 | ACD37519 |
| Uncultured sulfate-reducing bacterium | Dissimilatory sulfite reductase subunit A (82-88) | 13.3 | ABR45803 |
| Uncultured sulfate-reducing bacterium | Dissimilatory sulfite reductase alpha subunit (89-92) | 3.3 | ABR09856 |
| Uncultured sulfate-reducing bacterium | Dissimilatory sulfite reductase alpha subunit (96) | 16.7 | ABW69247 |
| mcrA | |||
| Uncultured Methanosarcinaceae archaeon | Methyl coenzyme M reductase alpha subunit (96) | 3.6 | AAN02199 |
| Uncultured euryarchaeote | Methyl coenzyme M reductase alpha subunit (90-91) | 3.6 | AAR22542 |
| Uncultured methanogenic archaeon | Methyl coenzyme M reductase alpha subunit (96) | 7.1 | CAN99766 |
| Uncultured archaeon | Methyl coenzyme M reductase alpha subunit (97-98) | 21.4 | ABX75060 |
| Uncultured euryarchaeote | Methyl coenzyme M reductase alpha subunit (96) | 25.0 | AAR24558 |
| Methanobacterium ivanovii | Methyl coenzyme M reductase alpha subunit (99) | 39.3 | ABO93183 |
a
Where several clones matched the same protein, the percentage of matching sequence is given as a range.