Table 2.

qPCR primers and probes used in this study

Organism	Primer or probe	Primer or probe sequence (5′-3′)	Optimum Concentration (nM)	Amplicon Size (bp)	Reference
BVDV 1 and 2	BVD-fwd	TAGCCATGCCCTTAGTAGGAC	700	94	Brooks et al. 2007
	BVD 1-rev	GACGACTACCCTGTCCTCAGG	700
	BVD-2-rev	GACGACTCCCCTGTACTCAGG	700
	BVD 1-probe	CAGTGGTGAGTTCGTTGGATGGCT	100
	BVD-2-probe	AGGGGACTAGCGGTAGCAGTGAGTTC	100
Bovine Rotavirus A	RVA-fwd	TGCCACACTGTTGTCAATATTA	300	168	Chang et al. 1999
	RVA-rev	TCCTCTGCTGTTGGGAAAAGTT	300		Chang et al. 1999
	RVA-probe	GGTAAGCCGCTAGAAGCAGATTTGACAGTG	100		This study
Bovine Coronavirus	CoV-fwd	ATTAGAACTGGAAGTTGGTGGA	500	199	This study
	CoV-rev	TCACATAAGCTGGCAAATCT	500
	CoV-probe	ACAATAATACGTGGTCATCTTTACATGCAAG	100
Enterovirus-Poliovirus Sabin III	EV-fwd	CCTCCGGCCCCTGAATG	300	196	De Leon et al. 1990
	EV-rev	ACCGGATGGCCAATCCAA	900
	EV-probe	CGGAACCGACTACTTTGGGTGTCCGT	100
E.coli O157:NM	eae-fwd	GTAAGTTACACTATAAAAGCACCGTCG	700	106	Ibekwe et al. 2004
	eae-rev	TCTGTGTGGATGGTAATAAATTTTTG	700
	eae-probe	AAATGGACATAGCATCAGCATAATAGGCTTGCT	100