Table 1.

Primers and TaqMan probe sequences used for amplification

Target(s)a	Primer	Sequence (5′ to 3′)	Expected amplicon size (bp)	Nucleotide positions	GenBank accession no.
MOX-1 to MOX-7, CMY1, CMY8 to CMY11	MOX-F1 4P1	AGACCCTGTTCGAGATAG	148	242–259	AF373217
	MOX-R1 4P1	ATGGTGATGCTGTCAAAG		389–372
	MOX-Taqprobe 4P1	5′-6-FAM-CGTGAGCAAGACCCTGACTG-3′ BHQ 1		264–283
FOX-1 to FOX-8	FOX-F1 4P1	ACATATTTCAACTATGGGGTT	148	881–898	X77455
	FOX-R1 4P1	TTGTCATCCAGCTCAAAG		1026–1009
	FOX1-Taqprobe 4P1	5′-6-FAM-TGACCGCAGCATAGGCAC-3′ BHQ 1		1001–984
CMY2, 4, 6, 7, 14–16, 18, 22, 25–44, 49, 53–56, 59	CMY2-F1 4P1	TCCAGCGTTATTGATATGG	147	733–751	HM565135
	CMY2-R1 4P1	CATCTCCCAGCCTAATCC		879–862
	CMY2-Taqprobe 4P1	5′-6-FAM-ACATATCGCCAATACGCCAGT-3′ BHQ 1		856–836
DHA-1, DHA-6, DHA-7	DHA-F3 4P1	TTATCTCACACCTTTATTACTG	139	469–490	EF078892
	DHA-R3 4P1	TATCTTTTGAGGCGGATT		607–590
	DHA3-Taqprobe 4P1	5′-6-FAM-CCGTAAGATTCCGCATCAAGC-3′ BHQ 1		584–564
ACT-1, ACT-2, ACT-5, ACT-8, MIR-1 to MIR-4	ACT-F1 4P1	GTGGCGGTGATTTATGAG	125	178–195	U58495
	ACT-R1 4P1	CCGGTGAAGGTTTTACTT		302–285
	ACT-Taqprobe 4P1	5′-6-FAM-CAGCCGCACTACTTCACCT-3′ BHQ 1		199–217
ACC-1	ACC-F2 4P1	CGCTGATGCAGAAGAATA	86	771–788	AJ133121
	ACC-R2 4P1	CGCTAACCCATAGTTATAAATG		856–835
	ACC2-Taqprobe 4P1	5′-6-FAM-TCACTGCGACCGACATACCG-3′ BHQ 1		815–796
16S rRNA in E. coli, Klebsiella spp., and Salmonella spp.	16srRNAEcKp-F1	GAGAGGATGACCAGCCACAC	55
	16srRNAEcKp-R1	CGCCATTGTGCAATATTCC
	16srRNAEcKp-probe	5′-HEX-TGAGACACGGTCCAGACTCCTACGG-3′ Iowa Black FQ

^aPlasmid-mediated ampC genes detected.