TABLE 3.

Primers used in sequencing the 3.1-kb NoV region amplified from mussel and patient samplesa

PrimerOligonucleotide sequencebNucleotide positionscSource or reference
NVp365′-ATAAAAGTTGGCATGAACA-3′4487-450535
NVp1105′-ACDATYTCATCATCACCATA-3′4884-486517
JV12Y5′-ATACCACTATGATGCAGAYTA-3′4552-457233
JV13I5′-TCATCATCACCATAGAAIGAG-3′4878-485833
GIF1cpFd5′-TGGCAGGCCATGTTCCGCT-3′5276-5294This study
GIR1cpRd5′-CGCTTGATGTAGCGTCCTTAGAC-3′5391-5369This study
N5550Fd5′-CAAGGTGAATTTACTATTTC-3′5550-5569This study
N6023Fd5′-CACAGTGGAACAGAAGACTA-3′6023-6042This study
N6094Rd5′-CACGTGAATTAGACAAAGAACTCA-3′6094-6070This study
N6375Fd5′-CAGACTCAGTATGATGTAGACA-3′6375-6396This study
N6400Rd5′-GTGGTGTCTACATCATAC-3′6400-6383This study
N7037Fd5′-CTTCAGAGTCAGAGATATCAACA-3′7037-7059This study
N7610Rd5′-GCCCACATTTCATATTACAACATC-3′7610-7587This study
GIFF5′-ATHGAACGYCAAATYTTCTGGAC-35075-509712
(Mix)5′-ATHGAAAGACAAATCTACTGGAC-3′
5′-ATHGARAGRCARCTNTGGTGGAC-3
GISKR5′-CCAACCCARCCATTRTACA-3′5671-565314
GIFFN5′-GGAGATCGCAATCTCCTGCCC-3′5327-53476
GICapB15′-TATGTTGACCCTGATAC-3′6738-675434
GICapA5′-GGCWGTTCCCACAGGCTT-3′6914-689734
GV75′-IATCATCTCYTTRTCATG-3′7108-70919
5′-T25VN-3′5′-TTTTTTTTTTTTTTTTTTTTTTTTTVN-3′≥7654-poly(A) 3′19
  • a The 3.1-kb product amplified from the RdRp-capsid-poly(A)-3′ region of the NoV genome.

  • b D = A, G, or T; I = inosine; N = A, T, C, or G; R = A or G; V = A, C, or G; W = A or T; Y = C or T.

  • c Equivalent nucleotide position in the genome of strain Norwalk-/68 (GenBank accession no. M87661).

  • d Primer sequence design based on strain SRSV-KY-89/89/J (GenBank accession no. L23828).