Table 8 Sequences of oligonucleotides used for detection of viruses in the study
Target gene | Primer | Position (nucleotide) | Sequence (5' to 3') | Amplicon size |
|---|---|---|---|---|
RSV N gene | RSVNF | 52–71 bp relative to RSV A (U39961) and RSV B (AF013254) | CTGTCATCCAGCAAATACAC | 683 bp |
|  | RSVNR | 711–734 bp relative to RSV A (U39961) and RSV B (AF013254) | ACCATAGGCATTCATAAACAATC |  |
PIV1 N gene | PIV1NF | 64–89 bp primer location was relative to NC003461, Washington 1964 strain (Osiowy C 1998) | TCTGGCGGAGGAGCAATTATACCTGG | 84 bp |
|  | PIV1NR | 122–147 bp primer location was relative to NC003461, Washington 1964 strain (Osiowy C 1998) | ATCTGCATCATCTGTCACACTCGGGC |  |
PIV2 N gene | PIV2NF | 221–242 bp primer location was relative to AF533012, Greer strain | GATGACACTCCAGTACCTCTTG | 197 bp |
|  | PIV2NR | 395–416 bp primer location was relative to AF533012, Greer strain | GATTACTCATAGCTGCAGAAGG |  |
PIV3 N gene | PIV3NF | 439–465 bp primer location was relative to D10025 strain | GATCCACTGTGTCACCGCTCAATACC | 266 bp |
|  | PIV3NR | 680–705 bp primer location was relative to D10025 strain | CTGAGTGGATATTTGGAAGTGACCTGG |  |
hMPV N gene | hMPVNF | 79–104 bp primer location was relative to hMPV 00–1 (AF371337) strain (Banerjee et al., 2007) | AAGCATGCTATATTAAAAGAGTCTCA | 440 bp |
|  | hMPVNR | 496–518 bp primer location was relative to hMPV 00–1 (AF371337) strain (Banerjee et al., 2007) | ATTATGGGTGTGTCTGGTGCTGA |  |
RSV N gene (nested primers) | RSVAF | 156–180 bp primer location was relative to RSV A (U39961) strains | AAGCAAATGGAGTGGATGTAACAAC | 260 bp |
|  | RSVAR | 532–554 bp primer location was relative to RSV A (U39961) strains | CTCCTAATCACAGCTGTAAGACCCA |  |
|  | RSVBF | 135–160 bp primer location was relative to RSV B (AF013254) strain | CAAACTATGTGGTATGCTATTAATCA | 328 bp |
|  | RSVBR | 463–486 bp primer location was relative to RSV B (AF013254) strain | ACACAGTATTATCATCCCACAGTC |  |
Influenza A matrix gene | Inf AF | 119–140 bp primer location was relative to NC003150 (A/New Caledonia/20/99) and NC032261 (A/Panama/2007/99) | AGGYWCTYATGGARTGGCTAAAG | 105 bp |
|  | Inf AR | 204–223 bp primer location was relative to NC003150 (A/New Caledonia/20/99) and NC032261 (A/Panama/2007/99) | GCAGTCCYCGCTCASTGGGC |  |
Influenza B matrix gene | Inf BF | 54–76 bp primer location was relative to CY018638 strain | GGAGAAGGCAAAGCAGAACTAGC | 503 bp |
|  | Inf BR | 531–554 bp primer location was relative to CY018638 strain | CCATTCCATTCATTGTTTTTGCTG |  |
GAPDH primers | GAPDH1 | Gueudin et al., 2003 | TCA TCC ATG ACAACT TTG GTA TCG TG | 564 bp |
| Â | GAPDH1 | Gueudin et al., 2003 | CTC TTC CTC TTG TGCTCT TG | Â |