Table 2.
Oigonucleotide sequences.
| RT-qPCR (amplicon size) | Oligonucleotide name | Primer/probe sequence (binding sites in reference genome)a,b |
|---|---|---|
| CH13-A (208 bp) | CH13_488Fq | 5′-AGGCATGACTATGAGCGCGT-3′ (488–507) |
| CH13_609Pq | 5′-FAMGGCAACGCACAGGCACTTGBHQ1-3′ (609–627) | |
| CH13_695Rq | 5′-AATCCGGTTGTGCCACCTCA-3′ (695–676) | |
| CH13-B (167 bp) | BAstV_qL | 5′-TTTTGGCTCGTCACTTTGTG-3′ (4058–4077) |
| BAstV_qP | 5′-FAMGATAAGCTTTGGAGGGGAGG-BHQ1-3′ (4123–4142) | |
| BAstV_qR | 5′-ACAACCTCCTTGGCAATCTG-3′ (4224–4205) | |
| CH13-C (112 bp) | CH13_6339Fq | 5′-GCACTCCCTTGCAGCAAGTC-3′ (6339–6358) |
| CH13_6382Pq | 5′-FAMCACCCACGCAGAAGCAGTTGBHQ1-3′ (6382–6401) | |
| CH13_6450Rq | 5′-CTCGATCCTACTCGGCGTGG-3′ (6450–6430) | |
| CDV (290 bp) | CDV_N-Fq | 5′-ACT ATT GAA TCC CTT ATG ATG CTA-3′ (990–1013) |
| CDV_N-Pq | 5′-YAKYEATTGCTCTGGAGTTATGCTATGGGAGTTGGTGBHQ1-3′ (1097–1128) | |
| CDV_N-Rq | 5′-GCC TCT TCC TTG GTG ATG-3′ (1279–1262) |
aAbbreviations: FAM, 6-Carboxyfluorescein; BHQ-1, Black Hole Quencher 1; YAKYE, Yakima Yellow.
bReference genomes GenBank accession numbers: CDV, MF041963.1; BoAstV CH13, NC_024498.1.