Table 3.
PCR primers used in this study
| Primer | Sequence of primer (5′–3′) | Tannealing (°C)a | Reference |
|---|---|---|---|
| cbhA-F | 5′AGCTGCCTCACTACTAACTG3′ | 52 | Stevens and Van Elsas (2010) |
| cbhA-R | 5′CCGGCTGTAGTTCCTTGAAT3′ | 52 | Stevens and Van Elsas (2010) |
| spoT-F | 5′GAACTGCGTTGGAGGCCATC3′ | 60 | Stevens and Van Elsas (2010) |
| spoT-R | 5′TATCCAAGAAGCAGGCTGAG3′ | 60 | Stevens and Van Elsas (2010) |
| PglA-F2 | 5′GCAGAACTCGCCCAACTTCC3′ | 58 | This study |
| PglA-R | 5′CTTCAGCGGCACGAAGGCAT3′ | 58 | This study |
| SSH primer 1 | 5′CTAATACGACTCACTATAGGGC3′ | 62 | BD bioscience |
| SSH nest1 | 5′TCGAGCGGCCGCCCGGGCAGGT3′ | 68 | BD bioscience |
| SSH nest 2 | 5′AGCGTGGTCGCGGCCGAGGT3′ | 68 | BD bioscience |
| SP6 | 5′ATTTAGGTGACACTATAGGG3′ | 55 | This study |
| T7 | 5′TAATACGACTCACTATAGGG3′ | 55 | This study |
| ps1-F | 5′TCACCGACCGCGCTACGAAT3′ | 59 | This study |
| ps1-R | 5′TCGGTAGCGGCGGAAGTCAT3′ | 59 | This study |
| ps2-F | 5′ACGTCGTCGGCAAGAGCTAC3′ | 59 | This study |
| ps2-R | 5′GGTGTGGAAGTCGCCAATGT3′ | 59 | This study |
| ps3-F | 5′GCCACGTTCCTGTCTTGGAT3′ | 59 | This study |
| ps3-R | 5′ACTGCGAACGAGCCTGTTAG3′ | 59 | This study |
| ps4-F | 5′CGGTGTGGTGATTGCACAGA3′ | 59 | This study |
| ps4-R | 5′ACAAGGCCAGAACGCAGAGT3′ | 59 | This study |
| ps5-F | 5′GCAAGGTCTGGCTAAGACTG3′ | 59 | This study |
| ps5-R | 5′CGACGACATGATCGACTACG3′ | 59 | This study |
| ps6-F | 5′AGACCGTTGTCGCAAGTTAC3′ | 59 | This study |
| ps6-R | 5′GCGCTCAAGGATTGACTGAA3′ | 59 | This study |
| ps7-F | 5′CGGCAGTCGCATGATTATCT3′ | 59 | This study |
| ps7-R | 5′AATGGTGCCGTCTGTTGAAG3′ | 59 | This study |
| ps8-F | 5′CTCACGCGATGGATACAGGA3′ | 59 | This study |
| ps8-R | 5′GAGCTGGTGAACGTGTATGG3′ | 59 | This study |
| ps9-F | 5′TGCAGAAGTCGCAAGCTCAT3′ | 60 | This study |
| ps9-R | 5′TTGTACCGGCTCTAGTGGAA3′ | 60 | This study |
| ps10-F | 5′GGTCATCGCAAGGTTCGTTA3′ | 58 | This study |
| ps10-R | 5′CGAGTCATGCCATCTTGGTT3′ | 58 | This study |
| ps11-F | 5′CTTGCTGCCTCCTTGAATGA3′ | 58 | This study |
| ps11-R | 5′GACGCTGCTCGTGTAATGAT3′ | 58 | This study |
| ps12-F | 5′TCGAAGCGGCTCTGACTTAT3′ | 55 | This study |
| ps12-R | 5′ATGACAGCCGGTGGTATGAA3′ | 55 | This study |
| ps13-F | 5′ATGCCGTGCCGCTTAAGATA3′ | 55 | This study |
| ps13-R | 5′ATCCACCTTGGATGCGATTC3′ | 55 | This study |
| ps14-F | 5′CAACATCACAGCGGATGCTA3′ | 55 | This study |
| ps14-R | 5′TCGCGATGTACGACACGATA3′ | 55 | This study |
| ps15-F | 5′ACGCCTACCGACAGATAACG3′ | 55 | This study |
| ps15-R | 5′GACGGTGGTGCGATTGAAGT3′ | 55 | This study |
| IS2/3-seq | 5′ACGCTGCACGATCATTGACC3′ | Seq. primer | This study |
F forward primer, R reverse primer
aAnnealing temperatures. Standard PCR reactions were preceded by a 5 min denaturation step at 96°C, followed by a final extension step for 5 min at 72°C