Figure 2

Primer location and specificity of the RV2 QPCR assay. Corresponding sequences from the end of ORF 60 and the adjacent intergenic region from different rhadinoviruses (see legend to Figure 1) were aligned. Rhadinovirus species and lineages are indicated. The primer set and probe were designed from the RRV and MneRV2 sequences. The RV2a primer and RV2-FAM probe were derived from the sense strand, as shown, while the RV2b primer was derived from the antisense strand. The alignment shows the mismatches between the primer and probe sequences and the MfaRV2 and PcyRV2 sequences identified with the RV2 assay in this study. Dots represent residues identical to those in the RRV sequence, and highlight the similarity of the primer sequences within the RV2 lineage of rhadinoviruses and the dissimilarity with members of the RV1 lineage of rhadinoviruses.