Table 1.
Genes, oligonucleotide primers and PCR conditions used in this study
| Protein or genetic element | Gene | Primers 5’ → 3’a | Amplicon size (bpb) |
PCR conditions |
References |
|---|---|---|---|---|---|
| Aae | aae | F: GAGGAGGATTTTAAAGTGC R: AACATGACCATAGTAACC |
858 | 94 °C, 3 min; 40 cycles of: 94 °C, 90s; 55 °C, 1 min; 72 °C, 90s; final extension 72 °C, 5 min. | [8] |
| Aap | aap | F: ATACAACTGGTGCAGATGGTTG R: GTAGCCGTCCAAGTTTTACCAG |
400 | 94 °C, 3 min; 30 cycles of: 94 °C, 1 min; 50 °C, 1 min; 72 °C, 1 min; final extension 72 °C, 5 min. | [52] |
| AtlE | atlE | F: CAACTGCTCAACCGAGAACA R: TTTGTAGATGTTGTGCCCCA |
682 | 94 °C, 3 min; 30 cycles of: 94 °C, 1 min; 62 °C, 1 min; 72 °C, 1 min; final extension 72 °C, 5 min. | [33] |
| Bhp | bhp | F: ACGGACAATATCGTCTCTCAA R:: AACTTCAGCCGTTCCCTT |
1917 | 94 °C, 2 min; 40 cycles of: 94 °C, 30s; 55 °C, 30s; 72 °C, 75 s; final extension 72 °C, 5 min. | [10] |
| Embp | embp | F: AGCGGTACAAATGTCAATATC R: AGAAGTGCTCTAGCATCATCC |
455 | 94 °C, 3 min; 30 cycles of: 94 °C, 1 min; 62 °C, 1 min; 72 °C, 1 min; final extension 72 °C, 5 min. | [6] |
| GehD | gehD | F: TTTGAATTCTGCGCAAGCTCAATATAA R: TTTGCGGCCGCTATCGCTACTTACGTGTAA |
1179 | 94 °C, 2 min; 30 cycles of: 94 °C, 30s; 55 °C, 30s; 72 °C, 75 s; final extension 72 °C, 5 min. | [9] |
| SdrF | sdrF | F: GCTGAAGACAATCAATTAG R: TTAATATCCCCCTGTGCTG |
1875 | 94 °C, 4 min; 30 cycles of: 94 °C, 2 min; 60 °C, 1 min; 72 °C, 2 min; final extension 72 °C, 5 min. | [10] |
| SdrG | fbe | F: TAAACACCGACGATAATAACCAAA R: GGTCTAGCCTTATTTTCATATTCA |
496 | 94 °C, 3 min; 30 cycles of: 94 °C, 1 min; 62 °C, 1 min; 72 °C, 1 min; final extension 72 °C, 5 min. | [5] |
| SesI | sesI | F: GCTGATTATGTAAATGACTCAAAT R: AGCTTTTGTTGTTTGAGCTTC |
408 | 94 °C, 3 min; 30 cycles of: 94 °C, 1 min; 50 °C, 1 min; 72 °C, 1 min; final extension 72 °C, 5 min. | [11] |
| IcaADB | icaADB | F: TTATCAATG CCGCAGTTGTC R: GTTTAACGCGAGTGCGCTAT |
546 | 94 °C, 3 min; 30 cycles of: 94 °C, 1 min; 58 °C, 1 min; 72 °C, 1 min; final extension 72 °C, 5 min. | [33] |
| ACME | arcA | F: CTAACACTGAACCCCAATG R: GAGCCAGAAGTACGCGAG |
1946 | 95 °C, 10 min; 30 cycles of: 94 °C, 1 min; 52 °C, 1 min; 72 °C, 2 min; final extension 72 °C, 5 min. | [43] |
| opp3AB | F: GCAAATCTGTAAATGGTCTGTTC R: GAAGATTGGCAGCACAAAGTG |
1183 |
a F: Forward; R: Reverse
b bp: base pairs