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Table 2 Primer sequences and PCR condition for detection of antimicrobial resistance and phylo-group genes

From: Molecular characterization and antimicrobial resistance of potentially human‐pathogenic Escherichia coli strains isolated from riding horses

Target (subject) Sequence (5’–3’) PCR condition Product size (bp) Reference
blaTEM (Resistance to β-lactam) Fa-GCGGAACCCCTATTTG 35 cycles: 95°C (30 s), 52°C (30 s), 72°C (60 s) 963 [11]
Rb-ACCAATGCTTAATCAGTGAG
blaSHV (Resistance to β-lactam) F-TTATCTCCCTGTTAGCCACC 35 cycles: 95°C (30 s), 54°C (30 s), 72°C (30 s) 795 [12]
R-GATTTGCTGATTTCGCTCGG
blaCTX-M (Resistance to β-lactam) F-CGATGTGCAGTACCAGTAA 35 cycles: 95°C (30 s), 60°C (30 s), 72°C (60 s) 585 [13]
R-TTAGTGACCAGAATCAGCGG
sulI (Resistance to sulfonamide) F-TTCGGCATTCTGAATCTCAC 30 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s) 822 [14]
R-ATGATCTAACCCTCGGTCTC
sulII (Resistance to sulfonamide) F-GCGCTCAAGGCAGATGGCATT 30 cycles: 94°C (30 s), 69°C (30 s), 72°C (60 s) 293 [15]
R-GCGTTTGATACCGGCACCCGT
dhfrI (Resistance to trimethoprim) F-AAGAATGGAGTTATCGGGAATG 30 cycles: 94°C (30 s), 55°C (30 s), 72°C (60 s) 391 [14]
R-GGGTAAAAACTGGCCTAAAATTG
dhfrV (Resistance to trimethoprim) F-CTGCAAAAGCGAAAAACGG 35 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s) 432 [14]
R-AGCAATAGTTAATGTTTGAGCTAAAG
aadA (Resistance to aminoglycoside) F-TGATTTGCTGGTTACGGTGAC 30 cycles: 94°C (30 s), 58°C (30 s), 72°C (60 s) 284 [14]
R-CGCTATGTTCTCTTGCTTTTG
stx1 (STEC) F-CAGTTAATGTGGTGGCGAAGG 35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s) 348 [16]
R-CACCAGACAATGTAACCGCTG
stx2 (STEC) F-ATCCTATTCCCGGGAGTTTACG 35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s) 584 [16]
R-GCGTCATCGTATACACAGGAGC
eae (EPEC) F-TCAATGCAGTTCCGTTATCAGTT 35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s) 482 [16]
R-GTAAAGTCCGTTACCCCAACCTG
stII (ETEC) F-AAAGGAGAGCTTCGTCACATTTT 35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s) 129 [16]
R-AATGTCCGTCTTGCGTTAGGAC
lt (ETEC) F-GCACACGGAGCTCCTCAGTC 35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s) 218 [16]
R-TCCTTCATCCTTTCAATGGCTTT
ipaH (EIEC) F-CTCGGCACGTTTTAATAGTCTGG 35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s) 933 [16]
R-GTGGAGAGCTGAAGTTTCTCTGC
aafII (EAEC) F-CACAGGCAACTGAAATAAGTCTGG 35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s) 378 [16]
R-ATTCCCATGATGTCAAGCACTTC
daaE (DAEC) F-GAACGTTGGTTAATGTGGGGTAA 35 cycles: 94°C (90 s), 60°C (90 s), 72°C (90 s) 542 [16]
R-TATTCACCGGTCGGTTATCAGT
arpA (phylo-grouping) F-AACGCTATTCGCCAGCTTGC 30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min) 400 [5]
R-TCTCCCCATACCGTACGCTA
chuA (phylo-grouping) F-ATGGTACCGGACGAACCAAC 30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min) 288 [5]
R-TGCCGCCAGTACCAAAGACA
yjaA (phylo-grouping) F-CAAACGTGAAGTGTCAGGAG 30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min) 211 [5]
R-AATGCGTTCCTCAACCTGTG
TspE4.C2 (phylo-grouping) F-CACTATTCGTAAGGTCATCC 30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min) 152 [5]
R-AGTTTATCGCTGCGGGTCGC
arpA-group E (phylo-grouping) F-GATTCCATCTTGTCAAAATATGCC 30 cycles: 94°C (5 s), 57°C (20 s) and 1 cycle 72°C (5 min) 301 [5]
R-GAAAAGAAAAAGAATTCCCAAGAG
trpA-group C (phylo-grouping) F-AGTTTTATGCCCAGTGCGAG 30 cycles: 94°C (5 s), 59°C (20 s) and 1 cycle 72°C (5 min) 219 [5]
R-TCTGCGCCGGTCACGCCC
  1. a Forward, b Reverse