Table 1.
The Primers and probes used for respiratory viruses screening
| Virus | Primer/probe | Sequence (5′‐3′) | Target gene | PCR product (bp) |
|---|---|---|---|---|
| IFV‐A | IFV A‐F | GACCRATCCTGTCACCTCTGAC | M | 82 |
| IFV A‐R | AGGGCATTYTGGACAAAKCGTCTA | |||
| IFV A‐Probe | FAM‐TGCAGTCCTCGCTCACTGGGCACG‐BHQ1 | |||
| Seasonal H1N1‐H1‐F | CGAAATATTCCCCAAAGARAGCT | HA | 76 | |
| Seasonal H1N1‐H1‐R | CCCRTTATGGGAGCATGATG | |||
| Seasonal H1N1‐H1‐Probe | FAM‐TGGCCCAACCACACCGTAACCG‐BHQ1 | |||
| Seasonal H1N1‐N1‐F | GATGGGCTATATACACAAAAGACAACA | NA | 257 | |
| Seasonal H1N1‐N1‐R | TGCTGACCATGCAACTGATT | |||
| Seasonal H1N1‐N1‐Probe | FAM‐TATAGGGCCTTAATGAGCTGTCCTCTAGG‐BHQ1 | |||
| Seasonal H3N2‐H3‐F | ACCAGAGAAACAAACTAGAGGCATATT | HA | 120 | |
| Seasonal H3N2‐H3‐R | TGTCCTGTGCCCTCAGAATTT | |||
| Seasonal H3N2‐H3‐Probe | FAM‐CGGTTGGTACGGTTTCAGGCA‐BHQ1 | |||
| Seasonal H3N2‐N2‐F | TGTATCTGACCAACACCACCATAGA | NA | 77 | |
| Seasonal H3N2‐N2‐R | TTGCGGCTTTGACCAATTTC | |||
| Seasonal H3N2‐N2‐Probe | FAM‐AAGGAAATATGCCCCAAACTAGCAGAATAC‐BHQ1 | |||
| Pandemic H1N1‐H1‐F | TTATCATTTCAGATACACCAGT | HA | 179 | |
| Pandemic H1N1‐H1‐R | AATAGACGGGACATTCCT | |||
| Pandemic H1N1‐H1‐Probe | FAM‐CCACGATTGCAATACAACT‐BHQ1 | |||
| Pandemic H1N1‐N1‐F | CAGAGGGCGACCCAAAGAGA | NA | 93 | |
| Pandemic H1N1‐N1‐R | GGCCAAGACCAACCCACA | |||
| Pandemic H1N1‐N1‐Probe | FAM‐CACAATCTGGACTAGCGGGAGCAGCAT‐BHQ1 | |||
| H5N1‐H5‐F | GGAACTTACCAAATACTGTCAATTTATTCA | HA | 84 | |
| H5N1‐H5‐R | CCATAAAGATAGACCAGCTACCATGA | |||
| H5N1‐H5‐Probe | FAM‐TTGCCAGTGCTAGGGAACTCGCCAC‐BHQ1 | |||
| H7N9‐H7‐F | AGAGTCATTRCARAATAGAATACAGAT | HA | 159 | |
| H7N9‐ H7‐R | CACYGCATGTTTCCATTCTT | |||
| H7N9‐ H7‐Probe | FAM‐AAACATGATGCCCCGAAGCTAAAC‐BHQ1 | |||
| H7N9‐N9‐F | GTTCTATGCTCTCAGCCAAGG | NA | 153 | |
| H7N9‐N9‐R | CTTGACCACCCAATGCATTC | |||
| H7N9‐N9‐Probe | FAM‐TAAGCTRGCCACTATCATCACCRCC‐BHQ1 | |||
| IFV‐B | IFV B‐F | TGCCTACCTGCTTTMMYTRACA | M | 75 |
| IFV B‐R | CCRAACCAACARTGTAATTTTTCTG | |||
| IFV B‐Probe | FAM‐TGCTTTGCCTTCTCCA‐BHQ1 | |||
| RSV‐A | RSV A‐F | GCTCTTAGCAAAGTCAAGTTGAATGA | N | 82 |
| RSV A‐R | TGCTCCGTTGGATGGTGTATT | |||
| RSV A‐Probe | FAM‐ACACTCAACAAAGATCAACTTCTGTCATCCAGC‐BHQ1 | |||
| RSV‐B | RSV B‐F | GATGGCTCTTAGCAAAGTCAAGTTAA | N | 104 |
| RSV B‐R | TGTCAATATTATCTCCTGTACTACGTTGAA | |||
| RSV B‐Probe | FAM‐TGATACATTAAATAAGGATCAGCTGCTGTCATCCA‐BHQ1 | |||
| PIV1 | PIV1‐F | ATCTCATTATTACCYGGACCAAGTCTACT | HN | 128 |
| PIV1‐R | CATCCTTGAGTGATTAAGTTTGATGAATA | |||
| PIV1‐Probe | FAM‐AGGATGTGTTAGAYTACCTTCATTATCAATTGGTGATG‐BHQ1 | |||
| PIV2 | PIV2‐F | CTGCAGCTATGAGTAATC | NP | 119 |
| PIV2‐R | TGATCGAGCATCTGGAAT | |||
| PIV2‐Probe | FAM‐AGCCATGCATTCACCAGAAGCCAGC‐BHQ1 | |||
| PIV3 | PIV3‐F | ACTCTATCYACTCTCAGACC | NP | 106 |
| PIV3‐R | TGGGATCTCTGAGGATAC | |||
| PIV3‐Probe | FAM‐AAGGGACCACGCGCTCCTTTCATC‐BHQ1 | |||
| PIV4 | PIV4‐F | GATCCACAGCAAAGATTCAC | NP | 113 |
| PIV4‐R | GCCTGTAAGGAAAGCAGAGA | |||
| PIV4‐Probe | FAM‐TATCATCATCTGCCAAATCGGCAA‐BHQ1 | |||
| HMPV | HMPV‐F | CATAYAARCATGCTATATTAAAAGAGTCTC | NP | 162 |
| HMPV‐R | CCTATYTCTGCAGCATATTTGTAATCAG | |||
| HMPV‐Probe | FAM‐TGYAATGATGARGGTGTCACTGCRGTTG‐BHQ1 | |||
| HCoV‐229E | 229E‐F | CAGTCAAATGGGCTGATGCA | NP | 76 |
| 229E‐R | AAAGGGCTATAAAGAGAATAAGGTATTCT | |||
| 229E‐Probe | FAM‐CCCTGACGACCACGTTGTGGTTCA‐BHQ1 | |||
| HCoV‐NL63 | NL63‐F | GACCAAAGCACTGAATAACATTTTCC | NP | 109 |
| NL63‐R | ACCTAATAAGCCTCTTTCTCAACCC | |||
| NL63‐Probe | FAM‐AACACGCTTCCAACGAGGTTTCTTCAACTGAG‐BHQ1 | |||
| HCoV‐OC43 | OC43‐F | GAAGGTCTGCTCCTAATTCCAGAT | NP | 206 |
| OC43‐R | TTTGGCAGTATGCTTAGTTACTT | |||
| OC43‐Prob | FAM‐TGCCAAGTTTTGCCAGAACAAGACTAGC‐BHQ1 | |||
| HCoV‐HKU1 | HKU1‐F | CCTTGCGAATGAATGTGCT | Replicase 1b | 94 |
| HKU1‐R | TTGCATCACCACTGCTAGTACCAC | |||
| HKU1‐Probe | FAM‐TGTGTGGCGGTTGCTATTATGTTAAGCCTG‐BHQ1 | |||
| HCoV‐MERS | BetaCoV_NF1083 | CAAAACCTTCCCTAAGAAGGAAAAG | NP | 83 |
| BetaCoV_NF1165 | GCTCCTTTGGAGGTTCAGACAT | |||
| BetaCoV_NPr1110 | FAM‐ACAAAAGGCACCAAAAGAAGAATCAACAGACC‐BHQ1 | |||
| HCoV‐SARS | SARS‐F | GCATAYAAAACATTCCCACCAA | NP | 120 |
| SARS‐R | AGCCGCAGGAAGAAGAGTCA | |||
| SARS‐Probe | FAM‐ACTGATGAAGCTCAGCCTTTRCCGC‐BHQ1 | |||
| HRV | HRV‐F | TGGACAGGGTGTGAAGAGC | 5′UTR | 144 |
| HRV‐R | CAAAGTAGTCGGTCCCATCC | |||
| HRV‐Probe | FAM‐TCCTCCGGCCCCTGAATG‐BHQ1 | |||
| ADV | ADV‐F | GCCACGGTGGGGTTTCTAAACTT | Hexon | 132 |
| ADV‐R | GCCCCAGTGGTCTTACATGCACATC | |||
| ADV‐Probe | FAM‐TGCACCAGACCCGGGCTCAGGTACTCCGA‐BHQ1 | |||
| HBoV | HBoV‐F | TGCAGACAACGCYTAGTTGTTT | NS1 | 88 |
| HBoV‐R | CTGTCCCGCCCAAGATACA | |||
| HBoV‐Probe | FAM‐CCAGGATTGGGTGGAACCTGCAAA‐BHQ1 |
Note: K = G or T; M = A or C; R = A or G; S = G or C; Y = C or T; W = A or T; D = A or G or T; N = A or C or G or T.
Abbreviations: ADV, adenovirus; HBoV, human bocavirus; HCoV, human coronavirus; HMPV, human metapneumovirus; HRV, human rhinovirus; IFV, influenza virus; PIV, parainfluenza virus; RSV, respiratory syncytial virus.
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