TABLE 2.
PCR primers and conditions used in this work
| Region or gene (resistance) | Primer
|
Expected amplicon | PCR conditionsa
|
||||
|---|---|---|---|---|---|---|---|
| Nameb | Sequence (5′ to 3′) | EMBL GenBank accession no. | Reference | Ta (°C) | ta (min:s) | ||
| Integron | 5′CS/3′CS | GGCATCCAAGCAGCAAGC/AAGCAGACTTGACCTGAT | U12338 | 12 | Variable | 55 | 2:30 |
| Integrase | Int1-F/B | GCCTTGCTGTTCTTCTAC/GATGCCTGCTTGTTCTAC | X12870 | 11 | 558 bp | 55 | 0:30 |
| qacEΔ1 | qacEΔ1-F/B | ATCGCAATAGTTGGCGAAGT/CAAGCTTTTGCCCATGAAGC | X15370 | 15 | 250 bp | 60–65 | 0:20 |
| sul1 (SUL) | sul1-F/B | CTTCGATGAGAGCCGGCGGC/GCAAGGCGGAAACCCGCGCC | X12869 | 15 | 436 bp | 65 | 0:30 |
| blaCARB (AMP) | OC-1/2c | AATGGCAATCAGCGCTTC/GGGGCTTGATGCTCACTC | 1 | 566 bp | 55–60 | 0:30 | |
| blaTEM (AMP) | OT-1/2c | TTGGGTGCACGAGTGGGT/TAATTGTTGCCGGGAAGC | 1 | 503 bp | 55 | 0:30 | |
| blaOXA (AMP) | OO-1/2c | ACCAGATTCAACTTTCAA/TCTTGGCTTTTATGCTTG | 7 | 598 bp | 50–55 | 0:30 | |
| aac(3)-IV (GEN) | aac(3)-IV F/B | GTTACACCGGACCTTGGA/AACGGCATTGAGCGTCAG | X01385 | This work | 674 bp | 55–60 | 0:40 |
| aadA (STR-SPT) | aadA1a-F/B | GTGGATGGCGGCCTGAAGCC/ATTGCCCAGTCGGCAGCG | M10241 | 15 | 526 bp | 70 | 0:30 |
| dfrA1-like (TMP) | dfrA15-F/B | GTGAAACTATCACTAATGG/CCCTTTTGCCAGATTTGG | Z83311 | 9 | 473 bp | 55 | 0:30 |
| dfrA12 (TMP) | dfrA12-F/B | ACTCGGAATCAGTACGCA/GTGTACGGAATTACAGCT | AF175203 | This work | 462 bp | 55 | 0:30 |
| cat (CHL) | cat-F/B | CCTGCCACTCATCGCAGT/CCACCGTTGATATATCCC | U46780 | This work | 623 bp | 60 | 0:30 |
| cmlA (CHL) | cmlA-F/B | TGTCATTTACGGCATACTCG/ATCAGGCATCCCATTCCCAT | M64556 | J. Ruíz and J. Vila, personal communication | 435 bp | 55 | 0:30 |
| floR (CHL) | paspp-flo-F/B | CACGTTGAGCCTCTATAT/ATGCAGAAGTAGAACGCG | AF071555 | 11 | 868 bp | 55 | 0:40 |
| tetA (TET) | tetA-F/B | GCTACATCCTGCTTGCCT/CATAGATCGCCGTGAAGA | X61367 | 11 | 210 bp | 55–60 | 0:20 |
| tetG (TET) | tetG-F/B | GCTCGGTGGTATCTCTGC/AGCAACAGAATCGGGAAC | S52437 | 11 | 500 bp | 55 | 0:30 |
| spvAd | spvA-F/B | GTCAGACCCGTAAACAGT/GCACGCAGAGTACCCGCA | 517162 | This work | 604 bp | 60 | 0:30 |
| spvBd | spvB-F/B | ACGCCTCAGCGATCCGCA/GTACAACATCTCCGAGTA | 517162 | This work | 1,063 bp | 60 | 1:00 |
| spvCd | spvC-F/B | ACTCCTTGCACAACCAAATGCGGA/TGTCTTCTGCATTTCGCCACCATCA | 517162 | 10 | 424 bp | 60 | 0:30 |
a
PCR assays were performed as described elsewhere (9). Ta, annealing temperature; te, elongation time.
b
F: forward; B: backward.
c
Shorter than original one primer.
d
Salmonella plasmid virulence gene.