. Author manuscript; available in PMC: 2010 Jul 15.

Published in final edited form as: Foodborne Pathog Dis. 2010 Feb;7(2):199–206. doi: 10.1089/fpd.2009.0355

Table 1.

Oligonucleotide Primers for Multiplex and Single Polymerase Chain Reaction Assays

Primer mix	Primer sequence	Primer name	Gene target	PCR Size (bp)	Pathotype	Plasmid control^a
M1^b	5′-GAGCGAAATAATTTATATGTG-3′	VT.F	VT	518	STEC	pOG401
	5′-TGATGATGGCAATTCAGTAT-3′	VT.R
	5′-CTGAACGGCGATTACGCGAA-3′	eae.F	eae	917	STEC, EPEC	pOG390
	5′-CGAGACGATACGATCCAG-3′	eae.R
	5′-AATGGTGCTTGCGCTTGCTGC-3′	bfpA.F	bfpA	326	EPEC	pOG394
	5′-GCCGCTTTATCCAACCTGGTA-3′	bfpA.R
	5′-GTATACACAAAAGAAGGAAGC-3′	aggR.F	aggR	254	EAEC	pOG395
	5′-ACAGAATCGTCAGCATCAGC-3′	aggR.F
M2^b	5′-GCACACGGAGCTCCTCAGTC-3′	LT.F	LT	218	ETEC	pWD299
	5′-TCCTTCATCCTTTCAATGGCTTT-3′	LT.R
	5′-GCTAAACCAGTAGAG(C)TCTTCAAAA-3′	ST.F	ST	147	ETEC	pSLm004
	5′-CCCGGTACAG(A)GCAGGATTACAACA-3′	ST.R
	5′-GAACGTTGGTTAATGTGGGGTAA-3′	daaE.F	daaE	542	DAEC	pOG391
	5′-TATTCACCGGTCGGTTATCAGT-3′	daaE.R
	5′-AGCTCAGGCAATGAAACTTTGAC-3′	virF.F	virF	618	EIEC	pOG392
	5′-TGGGCTTGATATTCCGATAAGTC-3′	virF.R
	5′-CTCGGCACGTTTTAATAGTCTGG-3′	ipaH.F	ipaH	933	EIEC	pOG393
	5′-GTGGAGAGCTGAAGTTTCTCTGC-3′	IpaH.R
P^c	5′-GACGAACCAACGGTCAGGAT-3′	chuA.F	chuA	279	NA	-
	5′-TGCCGCCAGTACCAAAGACA-3′	chuA.R
	5′-TGAAGTGTCAGGAGACGCTG-3′	yiaA.F	yiaA	211	NA	-
	5′-ATGGAGAATGCGTTCCTCAAC-3′	yiaA.R
	5′-GAGTAATGTCGGGGCATTCA-3′	TspE4C2.F	TspE4C2	152	NA	-
	5′-CGCGCCAACAAAGTATTACG-3′	TspE4C2.R
VT1	5′-CAGTTAATGTGGTGGCGAAGG-3	VT1.F	VT1	348	STEC	-
	5′CACCAGACAATGTAACCGCTG-3′	VT1.R
VT2	5′-ACCGTTTTTCAGATTTT(G/A)CACATA-3′	VT2.F	VT2	298	STEC	-
	5′-TACACAGGAGCAGTTTCAGACAGT-3′	VT2.R
uigA	5′-GCGTCTGTTGACTGGCAGGTGGTGG-3′	uidA.F	uidA	503	NA	-
	5′-GTTGCCCGCTTCGAAACCAATGCCT-3′	uidA.R

M1 and M2 are primer mixes to be used for the two-sample multiplex PCR assay for detection of Escherichia coli pathotypes.

Plasmids carrying each one of the E. coli pathotype gene targets. Plasmids are used as template DNA control for the two-sample multiplex PCR assay as previously described (Gomez-Duarte et al., 2009).

P is the primer mix to be used for a single-multiplex PCR for identification of phylogenetic group (Clermont et al., 2000).

PCR, polymerase chain reaction; EPEC, enteropathogenic Escherichia coli; STEC, shiga-toxin producing E. coli; EAEC, enteroaggregative E. coli; ETEC, enterotoxigenic E. coli; DAEC, diffuse adherent E. coli; EIEC, enteroinvasive E. coli; NA, not applicable.