Table 1 Target genes and primer sequences for respiratory pathogens
From: Respiratory viruses in children hospitalized for acute lower respiratory tract infection in Ghana
Virus | Target gene | Function | Oligonucleotide sequence |
|---|---|---|---|
RSVa (A/B) | Matrix gene [17] | Forward primer | 5'-GGAAACATACGTGAACAAGCTTCA |
| Â | Â | Reverse primer A | 5'-CATCGTCTTTTTCTAAGACATTGTATTGA |
| Â | Â | Reverse primer B | 5'-TCATCATCTTTTTCTAGAACATTGTACTGA |
| Â | Â | Probe | 6FAM-TGTGTATGTGGAGCCTT- MGBNFQ |
Adenovirus | Hexon gene [18] | Forward primer | 5'-GCCACGGTGGGGTTTCTAAACTT |
| Â | Â | Reverse primer | 5'-GCCCCAGTGGTCTTACATGCACAT |
| Â | Â | Probe | 6FAM-TGCACCAGACCCGGGCTCAGGTACTCCGA-TAMRA |
PIV Ib | Polymerase gene [19] | Forward primer | 5'-ACAGATGAAATTTTCAAGTGCTACTTTAGT |
| Â | Â | Reverse primer | 5'-GCCTCTTTTAATGCCATATTATCATTAGA |
| Â | Â | Probe | 6FAM-ATGGTAATAAATCGACTCGCT- MGBNFQ |
PIV IIc | Polymerase gene [19] | Forward primer | 5'-TGCATGTTTTATAACTACTGATCTTGCTAA |
| Â | Â | Reverse primer | 5'-GTTCGAGCAAAATGGATTATGGT |
| Â | Â | Probe | 6FAM-ACTGTCTTCAATGGAGATAT- MGBNFQ |
PIV IIId | Matrix gene [19] | Forward primer | 5'-TGCTGTTCGATGCCAACAA |
| Â | Â | Reverse primer | 5'-ATTTTATGCTCCTATCTAGTGGAAGACA |
| Â | Â | Probe | 6FAM-TTGCTCTTGCTCCTCA- MGBNFQ |
Influenza A | Matrix gene [20] | Forward primer A1 | 5'-GGACTGCAGCGTAGACGCTT |
| Â | Â | Forward primer A2 | 5'-CATCCTGTTGTATATGAGGCCCAT |
| Â | Â | Reverse primer | 5'-CATTCTGTTGTATATGAGGCCCAT |
| Â | Â | Probe | 6FAM-CTCAGTTATTCTGCTGGTGCACTTGCCA- MGBNFQ |
Influenza B | Hemagglutinin (HA)gene [20] | Forward primer | 5'-AAATACGGTGGATTAAATAAAAGCAA |
| Â | Â | Reverse primer | 5'-CCAGCAATAGCTCCGAAGAAA |
| Â | Â | Probe | 6FAM-CACCCATATTGGGCAATTTCCTATGGC- MGBNFQ |