Emergence of novel porcine circovirus 2d strains in Thailand, 2019–2020

Figures

• 

  Figure 1. Phylogenetic tree of PCV2 ORF2 sequences from Thailand. The 317 complete ORF2 sequences were Thai PCV2 sequences (2019–2020) in this study and reference sequences from an available database (6). The tree was constructed using the Neighbor-Joining method with a p-distance model and bootstrapping at 1,000 replicates. Node labels indicate bootstrap values. The taxon position markers were adjusted to enhance readability.

• 

  Figure 2. Phylogenetic tree of PCV2d ORF2 sequences from Thailand. The 158 complete ORF2 sequences were Thai PCV2d sequences in this study and the related PCV2d sequences from NCBI BLAST. A sequence of Thai PCV2b was used as an outgroup. The tree was constructed using the Neighbor-Joining method with the Maximum Composite Likelihood model and bootstrapping at 1,000 replicates. Node labels indicate bootstrap values. Specific branches were shortened, and the taxon position markers were adjusted to improve readability. A tree with each taxon label indicating the country of origin and the year of sample collection is available as Supplementary Figure 2.

• 

  Figure 3. Recombination analysis of 19NPT29. Recombination analysis was done using RDP software. Recombination breakpoints were identified in ORF1 and ORF2 regions of the 19NPT29 genome, resulting in recombinant region 1 (purple shaded) and 2 (dark green shaded) (A). Bootscanning analysis shows KU-1605 (South Korea) and 19RBR10 (Thailand, in this study) as parental strains (B). The phylogenetic trees were constructed based on recombinant region 1 (C) and 2 (D) to confirm recombination event.