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 |