TABLE 1.

Primers and probes, corresponding concentrations, and labels used for syndrome surveillance of viral gastroenteritis

VirusPrimers and probesDirectionaSequence (reference or source)Concn (pmol) in PCRLabelb (detection wavelength)
NoV GIINV2LCRREVTCGACGCCATCTTCATTCAC (20)10
NoV GIINV2LCFFORGARYCIATGTTYAGRTGGATG (20)10
NoV GIINV2LCprTGGGAGGGSGATCGCRATCT (20)2.5YY-BHQ1 (560 nm)
RVRVNSP3RREVGGTCACATAACGCCCCTA (16)10
RVRVNSP3FFORACCCTCTATGAGCACAATA (16)10
RVRotaNSP3P1CTAACACTGTCAAAAACCTAA (16)5FAM-TAMRA (530 nm)
EAVEAV 2049F2FORCTTGTGCTCAATTTACTGG (19; modified for this study)10
EAVEAV 2147R2REVGGCAGAGGTACAGAATAG (19; modified for this study)10
EAVEAV 2102PTGCAGCTTATGTTCCTTGC (19; modified for this study)5Texas Red-BHQ2 (610 nm)
NoV GINV1LCFFORCARGCCATGTTYCGYTGGATG (20)10
NoV GINV1LCRREVCCTTAGACGCCATCATCATTTAC (20)10
NoV GINV1LCprTGGACAGGAGAYCGCRATCT (20)5FAM-BHQ1 (530 nm)
AdVHEXAA 1885FORGCCGCAGTGGTCTTACATGCACAT (20)10
AdVHEXAA 1885aFORGCCCCARTGGGCRTACATGCACAT (this study)10
AdVHEXAA 1913REVCAGCACGCCGCGGATGTCAAAGT (20)10
AdVHEXAA 1913aREVARCACICCICGRATGTCAAAG (this study)10
AdVHEXAA LCprTGGTGCAGTTYGCCCG (this study)5FAM-BHQ1 (530 nm)
AsVAC230REVGGTTTTGGTCCTGTGACACC (20)10
AsVAC'1FORATGGCTAGCAAGTCTGACAAG (20)10
AsVAC LCprCAACGTGTCCGTAAMATTGTCA (this study)2.5YY-BHQ1 (560 nm)
SaVSVLCFFORGAYCWGGCYCTCGCCACCT (27; modified for this study)10
SaVSVLCRREVGCCCTCCATYTCAAACACTA (27; modified for this study)10
SaVSVLCPTGYACCACCTATRAACCAVG (27; modified for this study)5Texas Red-BHQ2 (610 nm)
  • a FOR, forward; REV, reverse.

  • b YY, Yakima yellow; BHQ, black hole quencher; FAM, 6-carboxyfluorescein; TAMRA, 6-carboxytetramethylrhodamine.