Figure 3.

Neighbour-joining phylogenetic trees of 23 CV-A8 variants combined with EV-A prototype strains constructed based on the (A) 5′-untranslated region, (B) P1 capsid region, (C) P2 non-capsid region and (D) P3 non-capsid region. The recombinant lineages are differentiated by distinct colours, and each genotype is indicated on the right side of the P1 tree. (E) Average pairwise diversity based on 23 whole genomes of all genotypes, genotypes D and E each, and the intra-genotype recombinant lineage each, using a sliding window of 200 nt with a step of 20 nt. (F) Recombination breakpoints based on the whole genomes of different lineages as detected within genotypes (D,E).