�mM MgCl~2~ was reduced to 0.5 mM and only 100 uM each (400 µM) deoxynucleoside triphasphate (dNTP) were used; 45 cycles were run with an annealing temperature of 57 °C.

Additional PCR and nucleotide sequencing was performed using multiple sets of specific primers for CPV16 using DNA extracted from FFPE pigmented plaques and the fresh SCC sample. These primer sets (listed [Supplemental Table 2](#s0115){ref-type="sec"}) included ChanaSet 7 (above), ChanaSet 9, and ChanaSet 11. PCR was performed as described above for ChanaSet 7 with the exception that only 50 µM each (20 µM) deoxynucleoside triphasphate (dNTP) were used and only 40 cycles were run at an annealing temperature of 58 °C. PCR using the primer set ChanaSet 14 ([Supplemental Table 2](#s0115){ref-type="sec"}) was run using genomic DNA extracted from the fresh SCC sample and viral plaque sample and reaction conditions as stated above for ChanaSet 9 with the exception that MgCl~2~ was not added and 45 cycles were run.

All PCR products were electrophoresed through a 1% agarose gel, purified, and sequenced as described above. The resulting nucleotide sequences were analyzed using BLAST. Vector NTI Advance 10 sequence analysis software (Invitrogen, Carlsbad, CA) was used to assemble the sequence contigs containing high-quality trace files.

2.3. Genomic organization and phylogenetic analysis {#s0040}
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Putative open reading frames (ORFs) and their corresponding amino acid sequence were predicted using Vector NTI Advance 10 sequence analysis software (Invitrogen). A phylogenetic tree was generated from an alignment of the L1 nucleotide sequences using the neighbor-joining method with commercially available software (CLC Sequence Viewer 7, Germantown, MD). The following CPVs with their corresponding GenBank accession numbers were used in the analysis: CPV1 ([D55633](ncbi-n:D55633){#ir0085}), CPV2 ([NC_006564](ncbi-n:NC_006564){#ir0090}), CPV3 ([NC_008297](ncbi-n:NC_008297){#ir0095}), CPV4 ([N