TABLE 1.
Sequences used for the design of the cel5, cel48, hydA, dsrA, and mcrA primer sets
| Primer set and target genea | Microorganism | NCBI accession no. |
|
|---|---|---|---|
| GenBank | GenPept | ||
| cel48 | |||
| celS | Clostridium thermocellum | L06942 | AAA23226 |
| celY | Clostridium thermocellum | AJ863163 | CAI06105 |
| celA | Bacteroides cellulosolvens | AY374129 | AAR23324 |
| celD | Clostridium josui | AB004845 | BAA32430 |
| celF | Clostridium cellulolyticum | U30321 | AAB41452 |
| celF | Clostridium acetobutylicum | AE001437 | AAK78887 |
| celA | Ruminococcus albus | AY422811 | AAR01217 |
| cel5 | |||
| celG | Fibrobacter succinogenes | U33887 | AAB38548 |
| endA | Ruminococcus flavefaciens | S55178 | AAB19708 |
| end1 | Butyrivibrio fibrisolvens | X17538 | CAA35574 |
| egl | Bacteroides ruminicola | M38216 | AAA22909 |
| engE | Clostridium cellulovorans | AF105331 | AAD39739 |
| celA | Clostridium longisporum | L02868 | AAC37035 |
| hydA | Clostridium acetobutylicum ATCC 824 | U15277 | AAB03723 |
| Clostridium pasteurianum ATCC 6013 | M81737 | AAA23248 | |
| Clostridium perfringens NCTC 8237 | AB016775 | BAA74726 | |
| Clostridium saccharobutylicum | U09760 | AAA85785 | |
| Clostridium difficile strain 630 | NC_009089 | YP_001089927 | |
| Clostridium novyi NT | NC_008593 | YP_877778 | |
| Clostridium thermocellum ATCC 27405 | AF148212 | AAD33071 | |
| dsrA | Desulfobacterium anilini | AF482455 | AAQ05939 |
| Desulfobacterium autotrophicum | AF418182 | AAL57437 | |
| Desulfococcus multivorans | U58126 | AAC24101 | |
| Desulfobacter curvatus | AF418199 | AAL57471 | |
| Desulfobacter postgatei | AF418198 | AAL57469 | |
| Desulfotomaculum ruminis | U58118 | AAC24103 | |
| Desulfobulbus propionicus | AF218452 | AAG28585 | |
| Desulfovibrio aerotolerans | AY749039 | AAU95684 | |
| Desulfovibrio alkalitolerans | AY864856 | AAW83205 | |
| Desulfovibrio burkinensis | AF418186 | AAL57445 | |
| Desulfovibrio desulfuricans | DQ092635 | AAZ04355 | |
| Desulfovibrio vulgaris | U16723 | AAA70107 | |
| mcrA | Methanococcus voltae | X07793 | CAA30633 |
| Methanococcus vannielii | M16893 | AAA72595 | |
| Methanothermus fervidus | J03375 | AAA72197 | |
| Methanosarcina barkeri | Y00158 | CAA68357 | |
| Methanocaldococcus jannaschii | L77117 | AAB98851 | |
| Methanothermobacter thermautotrophicus | NC_000916 | NP_276292 | |
| Methanopyrus kandleri | U57340 | 1E6VA | |
a
Target genes are listed only when the gene name differs from the name of the primer set.