Table 1.

Specific oligonucleotide primers and probes for the qPCR detection and quantification viral genomes

Enteric virus	Primer sequence (5′ → 3′) and TaqMan probe label	Reaction conditions (°C)	Reference	Control strain
Adenovirus	JTVX (F): 5′-GGACGCCTCGGAGTACCTGAG-3′	95°, 95°, 55°, 72°	Xagoraraki et al. (2007)	ATCC VR-6
	JTVX (R): 5′-ACIGTGGGGGTTTCTGAACTTGTT-3′	15′, 10″, 30″, 20″
	JTVX (P): 5′-FAM-CTGGTGCAGTTCGCCCGTGCCA-BHQ-3′
Hepatitis A Virus	HAV68 (F): 5′-TCACCGCCGTTTGCCTAG-3′	95°, 95°, 60°, 70°	Pinto et al. (2009)	ATCC VR-1357; Strain PA21
	HAV240 (R): 5′-GGAGAGCCCTGGAAGAAAG-3′	10′, 15″, 1′, 1′
	HAV150 (P): 5′-FAM-CCTGAACCTGCAGGAATTAA-MGBNFQ-3′
Rotavirus	JVK (F): 5′-CGATGGTTGATGCTCAAGATGGA-3′	95°, 95°, 55°, 72°	Jothikumar et al. (2009)	ATCC VR-2274; Strain 248
	JVK (R): 5′-TCATTGTAATCATATTGAATACCCA-3′	15′, 15″, 30″, 30″
	JVK (P): 5′-FAM-ACAACTGCAGCTTCAAAAGAAGWGT-BHQ-3′

F forward/sense, R reverse/antisense, p probe, FAM 6-carboxyfluorescein (reporter dye), MGBNFQ minor groove binder/nonfluorescent quencher, TAMRA 6-carboxy-tetramethylrhodamine (quencher dye), BHQ black hole quencher