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Table 3 Primer sequences, expected amplicon sizes and their cycling conditions

From: Occurrence of virulence gene signatures associated with diarrhoeagenic and non-diarrhoeagenic pathovars of Escherichia coli isolates from some selected rivers in South-Western Nigeria

Target strain Target gene Primer sequence (5′ → 3′) Amplicon size (bp) PCR cycling condition Reference
E. coli uidA F: AAA ACG GCA AGA AAA AGC AG 147 5 min initial denaturation at 94 °C followed by 35 cycles of 95 °C for 30 s, 58 °C for 1 min, 72 °C for 1 min and final extension at 72 °C for 8 min [90]
R: ACG CGT GGT TAA CAG TCT TGC G
EPEC eaeEae F: TCA ATG CAG TTC CGT TAT CAG TT 482 15 min initial denaturation at 95 °C followed by 35 cycles of 94 °C for 45 s, 55 °C for 45 s, 68 °C for 2 min and final extension at 72 °C for 5 min [93]
R: GTA AAG TCC GTT ACC CCA ACC TG
  bfpBfp F: GGA AGT CAA ATT CAT GGG GGT AT 300 2 min initial denaturation at 94 °C followed by 40 cycles of 94 °C for 1 min, 55 °C for 1 min, 72 °C for 1 min and final extension at 72 °C for 5 min [93]
R: GGA ATC AGA CGC AGA CTG GTA GT
ETEC ltLt F: GGC GAC AGA TTA TAC CGT GC 450 2 min initial denaturation at 94 °C followed by 35 cycles of 94 °C for 1 min, 55 °C for 1 min, 72 °C for 1 min and final extension at 72 °C for 5 min [94]
G: CGG TCT CTA TAT TCC CTG TT
EAEC eaggEagg F: AGA CTC TGG CGA AAG ACT GTA TC 194 15 min initial denaturation at 95 °C followed by 35 cycles of 94 °C for 45 s, 55 °C for 45 s, 68 °C for 2 min and final extension at 72 °C for 5 min [95]
R: ATG GCT GTC TGT AAT AGA TGA GAA C
EIEC ipaH F: CTC GGC ACG TTT TAA TAG TCT GG 933 2 min initial denaturation at 94 °C followed by 35 cycles of 94 °C for 1 min, 55 °C for 1 min, 72 °C for 1 min and final extension at 72 °C for 5 min [96]
R: GTG GAG AGC TGA AGT TTC TCT GC
DAEC daaE F: GAA CGT TGG TTA ATG TGG GGT AA 542 2 min initial denaturation at 94 °C followed by 40 cycles of 92 °C for 30 s min, 59 °C for 30 s, 72 °C for 30 s and final extension at 72 °C for 5 min [96]
R: TAT TCA CCG GTC GGT TAT CAG T
EHEC stx1 F: CAG TTA ATG TGG TGG CGA AGG 384 15 min initial denaturation at 95 °C followed by 35 cycles of 94 °C for 45 s, 55 °C for 45 s, 68 °C for 2 min and final extension at 72 °C for 5 min [72]
R: CAC CAG ACA ATG TAA CCG CTG
  stx2 F: ATC CTA TTC CCG GGA GTT TAC G 584 2 min initial denaturation at 94 °C followed by 35 cycles of 94 °C for 1 min, 55 °C for 1 min, 72 °C for 1 min and final extension at 72 °C for 5 min [72]
R GCG TCA TCG TAT ACA CAG GAG C
NMEC ibeA F: TGG AAC CCC GCT CGT AAT ATA C 342 2 min initial denaturation at 94 °C followed by 30 cycles of 94 °C for 1 min, 55 °C for 1 min, 72 °C for 1 min and final extension at 72 °C for 5 min [96]
R: CTG CCT GTT CAA GCA TTG CA
UPEC papC F: GAC GGC TGT ACT GCA GGG TGT GGC G 328 2 min initial denaturation at 94 °C followed by 30 cycles of 94 °C for 1 min, 55 °C for 1 min, 72 °C for 1 min and final extension at 72 °C for 5 min [97]
R: ATA TCC TTT CTG CAG GGA TGC AAT A