Table 1.

E. coli target genes and primer sequences used to identify/characterise E. coli pathotypes.

Target Strains	Target Genes	Primer sequence (5’→3’)	Amplicon Size (bp)	Annealing Temp (ºC)	References
EHEC	Shiga toxin 1 (stx1)	F-CAGTTAATGTGGTGGCGAAGG R-CACCAGACAATGTAACCGCTG	348	55	[21]
	Shiga toxin 2 (stx2)	F-ATCCTATTCCCGGGAGTTTAC G R-GCGTCATCGTATACACAGGAGC	584	55	[21]
	flicH7	F: GCGCTGTCGAGTTCTATCGAGC R: CAACGGTGACTTTATCGCCATTCC	625	55	[22]
EPEC	Intimin (Eae) gene	F-TCAATGCAGTTCCGTTATCAGTT R-GTAAAGTCCGTTACCCCAACCTG	482	54	[23]
ETEC	Heat-labile toxin (lt)	F-GCACACGGAGCTCCTCAGTC R-TCCTTCATCCTT TCA ATG GCT TT	218	58	[23]
EIEC	Invasin plasmid antigen (ipaH)	F-CTC GGC ACG TTT TAA TAG TCTGG R-GTGGAG AGC TGA AGT TTC TCTGC	933	53	[24]
EAEC	Aggregative adherent fimbriae (aafII)	F-CACAGGCAACTGAAATAAGTCTGG R-ATT CCC ATG ATG TCA AGC ACT TC	378	56	[24]
DAEC	F1845 Fimbriae (daaE)	F-GAACGT TGG TTA ATG TGG GGT AA R-TAT TCA CCG GTC GGT TAT CAG T	542	54	[24]
UPEC	Pyelonephritis-associated pili (pap)	F-AAC CTGGCTTACGCAACTGTACCC GT R-CTG CAA AAT CAT GGA T	585	58	[21]
NMEC	Invasion of brain endothelial (IbeA) gene	F-TGGAACCCGCTCGTAATATAC R-CTGCCTGTTCAAGCATTGCA	900	58	[21]