TABLE 2.
Primers and probes used for real-time RT-PCR in this study
| Primer or probe | Typee | Sequencef | Position |
|---|---|---|---|
| NLV-RT-FWDaa | NV, sense primer | TGT TYA GRT GGA TGA GRT TCT C | 5013-5034g |
| COG2Rb | NV, antisense primer | TCG ACG CCA TCT TCA TTC ACA | 5100-5079h |
| QNIFS-BHQc | NV, probe | FAM-AGC ACG TGG GAG GGC GAT CG-BHQ1 | 5042-5061h |
| MS2-TM2-Fd | MS2, sense primer | TGC TCG CGG ATA CCC G | 3169-3184i |
| MS2-TM2-Rd | MS2, antisense primer | AAC TTG CGT TCT CGA GCG AT | 3229-3210i |
| MS2-TM2JOEd | MS2, probe | JOE-ACC TCG GGT TTC CGT CTT GCT CGT-BHQ1 | 3186-3209i |
a
Modified sequence QNIF2 as described by Loisy et al. (61).
b
Data from reference 49.
c
Sequence QNIFS as described by Loisy et al. (61) modified with quencher dye BHQ1 at the 3′ end.
d
Data from reference 29.
e
NV, norovirus detection; MS2, MS2 detection.
f
Y = C or T; R = A or G; FAM, 6-carboxyfluorescein; BHQ1, black hole quencher 1; JOE, 6-carboxy-4′,5′ -dichloro-2′,7′-dimethoxyfluorescein.
g
Position in the nucleotide sequence of Lordsdale virus (GenBank accession no. X86557).
h
Position in the nucleotide sequence of Camberwell virus (accession no. AF145896).
i
Position in the nucleotide sequence of phage MS2 (accession no. V00642).