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. 2020 Jun 20;737:140405. doi: 10.1016/j.scitotenv.2020.140405

Table 1.

Primers and probes of qPCR assays used in this study.

Assay Function Name Sequence (5′–3′)a Product length (bp) Reference
N_Sarbeco Forward primer N_Sarbeco_F1 CACATTGGCACCCGCAATC 128 Corman et al., 2020
Reverse primer N_Sarbeco_R1 GAGGAACGAGAAGAGGCTTG
TaqMan probe N_Sarbeco_P1 FAM-ACTTCCTCAAGGAACAACATTGCCA-BHQ1
NIID_2019-nCOV_N Forward primer NIID_2019-nCOV_N_F2 AAATTTTGGGGACCAGGAAC 158 Shirato et al., 2020
Reverse primer NIID_2019-nCOV_N_R2ver3 TGGCACCTGTGTAGGTCAAC
TaqMan probe NIID_2019-nCOV_N_P2 FAM-ATGTCGCGCATTGGCATGGA-BHQ1
CDC-N1 Forward primer 2019-nCoV_N1-F GACCCCAAAATCAGCGAAAT 72 CDC, 2020
Reverse primer 2019-nCoV_N1-R TCTGGTTACTGCCAGTTGAATCTG
TaqMan probe 2019-nCoV_N1-P FAM-ACCCCGCATTACGTTTGGTGGACC-BHQ1
CDC-N2 Forward primer 2019-nCoV_N2-F TTACAAACATTGGCCGCAAA 67 CDC, 2020
Reverse primer 2019-nCoV_N2-R GCGCGACATTCCGAAGAA
TaqMan probe 2019-nCoV_N2-P FAM-ACAATTTGCCCCCAGCGCTTCAG-BHQ1
PMMoVb Forward primer PMMV-FP1 GAGTGGTTTGACCTTAACGTTTGA 68 Zhang et al., 2006
Reverse primer PMMV-FP1-rev TTGTCGGTTGCAATGCAAGT Haramoto et al., 2013
TaqMan MGB probe PMMV-Probe1 FAM-CCTACCGAAGCAAATG-NFQ-MGB Zhang et al., 2006
Coliphage MS2 Forward primer Not available ATCCATTTTGGTAACGCCG 68 Friedman et al., 2011
Reverse primer Not available TGCAATCTCACTGGGACATAT
TaqMan MGB probe Not available FAM-TAGGCATCTACGGGGACGA-NFQ -MGB
a

FAM, 6-carboxyfluorescein; MGB, minor groove binder; NFQ, nonfluorescent quencher; BHQ1, black hole quencher 1.

b

PMMoV, pepper mild mottle virus.