Table 1.
Primers used in PCR sequencing
| Primer name | Sequence | Reference |
|---|---|---|
| 16S-SR | 5′-GGT CTG TCA AAA CTG AAG ATG-3′ | Lee et al. (2004) |
| P1 | 5′-AAG AGT TTG ATC CTG GCT CAG GAT T-3′ | Deng and Hiruki (1991) |
| P1A | 5′-AAC GCT GGC GGC GCG CCT AAT AC-3′ | Lee et al. (2004) |
| P7 | 5′-CGT CCT TCA TCG GCT CTT-3′ | Schneider et al. (1995) |
| F5 | 5′-GGT TGT CGT CAG CTC GTG TCG-3′ | Lee, Pers. communication |
| P5 | 5′-CGG CAA TGG AGG AAA CT-3′ | Schneider et al. (1995) |
| R3 | 5′-GGC ACA TAG TTA GCC GGG GCT TAT-3′ | Lee, Pers. communication |
| R5 | 5′- CGA CAC GAG CTG ACG ACA ACC-3′ | Lee, pers. communication |
| L15F1A(III) | 5′-CTT CTG GTA AAG GAC ATA AAG G-3′ | Lee et al. (2010) |
| MapR1A(III) | 5′-GGT TCT TCG TGC AAT TGC AAA CC-3′ | Lee et al. (2010) |
| SecYF1(III) | 5′-CTA GAC CAG GTT TTG AAG G-3′ | Lee et al. (2010) |
| SecYR1(III) | 5′-GAC CTG CTT TTC TCA TTA TAG C-3′ | Lee et al. (2010) |
| SecYG-SF1 | 5′-CAG AAA ATG GTT TTT CCC AAT GGG T-3′ | Dally pers. communication |
| SecYG-SR1 | 5′-GTT TAG TAG CGT AAG TGA TTG G-3′ | Dally, Pers. communication |
| Tuf340a | 5′-GCT CCT GAA GAA ARA GAA CGT GG-3 | Makarova et al. (2012) |
| Tuf340b | 5′-ACT AAA GAA GAA AAA GAA CGT GG-3′ | Makarova et al. (2012) |
| Tuf400aM13F | 5′-GTA AAA CGA CGG CCA GTG AAA CAG AAA AAC GTC AYT ATG CTC A-3′ | Makarova et al. (2012) |
| Tuf400bM13F | 5′-GTA AAA CGA CGG CCA GTG AAA CTT CTA AAA GAC ATT ACG CTC A-3′ | Makarova et al. (2012) |
| Tuf400cM13F | 5′-GTA AAA CGA CGG CCA GTG AAA CAT CAA AAA GAC AYT ATG CTC A-3′ | Makarova et al. (2012) |
| Tuf400dM13F | 5′-GTA AAA CGA CGG CCA GTG AAA CAG AAA AAA GAC AYT ATG CTC A-3′ | Makarova et al. (2012) |
| Tuf400eM13F | 5′-GTA AAA CGA CGG CCA GTC AAA CAG CTA AAA GAC ATT ATY CTC A-3′ | Makarova et al. (2012) |
| Tuf835raT7 | 5′-TAA TAC GAC TCA CTA TAG GGA ACA TCT TCW ACH GGC ATT AAG AAA GG-3′ | Makarova et al. (2012) |
| Tuf835rbT7 | 5′-TAA TAC GAC TCA CTA TAG GGA ACA CCT TCA ATA GGC ATT AAA AAW GG-3′ | Makarova et al. (2012) |
| Tuf835rcT7 | 5′-TAA TAC GAC TCA CTA TAG GGA ACA TCT TCT ATA GGT AAT AAA AAA GG-3′ | Makarova et al. (2012) |
| Tuf890ra | 5′-ACT TGD CCT CTT TCK ACT CTA CCA GT-3′ | Makarova et al. (2012) |
| Tuf890rb | 5′-ATT TGT CCT CTT TCW ACA CGT CCT GT-3′ | Makarova et al. (2012) |
| Tuf890rc | 5′-ACC ATT CCT CTT TCA ACA CGT CCA GT-3′ | Makarova et al. (2012) |
For tuf amplification, Tuf 340/Tuf890 and Tuf400/Tuf835 primer cocktails were used in direct and nested PCR, respectively. Nested primers include the nucleotides of the general primers M13F and T7 (italics) used for sequencing.