Table 2.
Oligonucleotides used in this study for PCR and qPCR assays targeting each ARG. For each assay, the amplimer length and the limit of quantification (LOQ) are indicated.
| Target gene | Reaction | Oligonucleotide | Sequence | Amplimer (bp) | LOQ (GC) | Reference |
|---|---|---|---|---|---|---|
| bla TEM | PCR | UP | CTCACCCAGAAACGCTGGTG | 569 | 21 | |
| LP | ATCCGCCTCCATCCAGTCTA | |||||
| qPCR | UP | CACTATTCTCAGAATGACTTGGT | 85 | 7.6 | 65 | |
| LP | TGCATAATTCTCTTACTGTCATG | |||||
| TaqMan TEM | 6FAM-CCAGTCACAGAAAAGCATCTTACGG-MGBNFQ | |||||
| blaCTX-M-1-group | PCR | UP | ACGTTAAACACCGCCATTCC | 356 | 21 | |
| LP | TCGGTGACGATTTTAGCCGC | |||||
| qPCR | UP | ACCAACGATATCGCGGTGAT | 101 | 8.4 | 21 | |
| LP | ACATCGCGACGGCTTTCT | |||||
| TaqMan CTX-M-1 | 6FAM–TCGTGCGCCGCTG-MGBNFQ | |||||
| blaCTX-M-9-group | PCR | UP | ACGCTGAATACCGCCATT | 352 | 26 | |
| LP | CGATGATTCTCGCCGCTG | |||||
| qPCR | UP | ACCAATGATATTGCGGTGAT | 85 | 13 | 26 | |
| LP | CTGCGTTCTGTTGCGGCT | |||||
| TaqMan CTX-M-9 | 6FAM – TCGTGCGCCGCTG- MGBNFQ | |||||
| bla OXA-48 | PCR | UP | CGTTATGCGTGTATTAGCCTTAT | 790 | 25 | |
| LP | TTTTTCCTGTTTGAGCACTTCTTT | |||||
| qPCR | UP | CGGTAGCAAAGGAATGGCAA | 133 | 18.2 | 25 | |
| LP | TGGTTCGCCCGTTTAAGATT | |||||
| TaqMan OXA-48 | 6FAM-CGTAGTTGTGCTCTGGA-MGBNFQ | |||||
| bla VIM | PCR | UP | TCTACATGACCGCGTCTGTC | 748 | 28 | |
| LP | TGTGCTTTGACAACGTTCGC | |||||
| qPCR | UP | AATGGTCTCATTGTCCGTGATG | 61 | 33.9 | 28 | |
| LP | TCGCACCCCACGCTGTA | |||||
| TaqMan VIM | 6FAM –TGATGAGTTGCTTTTGATTG- MGBNFQ | |||||
| sul1 | PCR | UP | TTCATGGGCAAAAGCTTGATG | 965 | 20, 66 | |
| LP | GGCCGGAAGGTGAATGCTA | |||||
| qPCR | UP | CCGTTGGCCTTCCTGTAAAG | 67 | 5.9 | 20 | |
| LP | TTGCCGATCGCGTGAAGT | |||||
| TaqMan sul1 | 6FAM-CGAGCCTTGCGGCGG-MGBNFQ | |||||
| mecA | PCR | UP | GATAGCAGTTATATTTCTA | 434 | 21 | |
| LP | ATACTTAGTTCTTTAGCGAT | |||||
| qPCR | UP | CGCAACGTTCAATTTAATTTTGTTAA | 92 | 10.4 | 67 | |
| LP | TGGTCTTTCTGCATTCCTGGA | |||||
| TaqMan mecA | 6FAM-AATGACGCTATGATCCCAATCTAACTTCCACA-MGBNFQ | |||||
| qnrA | PCR | UP | ACGCCAGGATTTGAGTGAC | 565 | 46 | |
| LP | CCAGGCACAGATCTTGAC | |||||
| qPCR | UP | AGGATTGCAGTTTCATTGAAAGC | 138 | 8.6 | 46 | |
| LP | TGAACTCTATGCCAAAGCAGTTG | |||||
| TaqMan qnrA | 6FAM-TATGCCGATCTGCGCGA-MGBNFQ | |||||
| qnrS | PCR | UP | AAGTGATCTCACCTTCACCGCTTG | 425 | 46 | |
| LP | TTAAGTCTGACTCTTTCAGTGATG | |||||
| qPCR | UP | CGACGTGCTAACTTGCGTGA | 118 | 8.3 | 46 | |
| LP | GGCATTGTTGGAAACTTGCA | |||||
| TaqMan qnrS | 6FAM-AGTTCATTGAACAGGGTGA-MGBNFQ | |||||
| armA | PCR | UP | CAAATGGATAAGAATGATGTT | 774 | 63 | |
| LP | TTATTTCTGAAATCCACT | |||||
| qPCR | UP | GAAAGAGTCGCAACATTAAATGACTT | 94 | 33.4 | 24 | |
| LP | GATTGAAGCCACAACCAAAATCT | |||||
| TaqMan armA | 6FAM-TCAAACATGTCTCATCTATT-MGBNFQ | |||||
| 16SrDNA | qPCR | 338 F | ACTCCTACGGGAGGCAGCAG | 236 | 68 | |
| 518 R | ATTACCGCGGCTGCTGG | |||||
| pGEM | PCR | pGEM7up | TGTAATACGACTCACTAT | Promega |