TABLE 1.
Primers and probes for quantitative PCR used in the present study
| Name | Sequence (5′→3′)a | Product size (bp) | Annealing temp (°C) | Final primer concn (nM) | Target | Reference |
|---|---|---|---|---|---|---|
| Universal bacteria | ||||||
| BACT1369F | CGGTGAATACGTTCYCGG | 123 | 59 | 300 | rrnS gene | 29 |
| PROK1492R | GGWTACCTTGTTACGACTT | |||||
| TM1389F | HEX-CTTGTACACACCGCCCGTC-BHQ1 | |||||
| erm(B) | ||||||
| ermB-F | AAAACTTACCCGCCATACCA | 139 | 65 | 400 | Erythromycin resistance gene locus B | 30 |
| ermB-R | TTTGGCGTGTTTCATTGCTT | |||||
| str(B) | ||||||
| strB-F | ATCGCTTTGCAGCTTTGTTT | 143 | 61 | 300 | Streptomycin phosphotransferase B | 31 |
| strB-R | ATGATGCAGATCGCCATGTA | |||||
| strB-P | HEX-ATGCCTCGGAACTGCGT-BHQ1 | |||||
| sul1 | ||||||
| sul1-F | GACTGCAGGCTGGTGGTTAT | 105 | 64 | 200 | Sulfamethazine resistance gene 1 | This study |
| sul1-R | GAAGAACCGCACAATCTCGT | |||||
| int1 | ||||||
| Int1F2 | TCGTGCGTCGCCATCACA | 67 | 62 | 400 | Integrase class 1 | 23 |
| Int1R2 | GCTTGTTCTACGGCACGTTTGA | |||||
| IncW repA | ||||||
| IncW-F | GGCCATCGTATCAACGAGAT | 153 | 61 | 300 | repA gene from plasmid incompatibility group W | This study |
| IncW-R | ATTGGTGCGCTCAAAGTAGC | |||||
| IncW-P | HEX-AGCTGGCTTAGTCGGCTACA-BHQ1 |
a
HEX, 2′,4′,5′,7′-tetrachloro-6-carboxy-4,7-dichlorofluorescein succinimidyl ester; BHQ1, black hole quencher 1.