Figure 1.
Methodological strategy and genomic organization for HPV154.
The ORFs are indicated with light blue arrows. The primers used in the DIPS-PCR are represented with half arrows. The inner circle shows the strategies employed, and the outer circle shows the final clones. Putative binding sites for viral proteins and cellular factors are shown as follows: E2 binding site, E2BS (▾); E1 binding site, E1BS (Δ); TATA-box (▪); Polyadenylation signal (•).
Table 1.
Characteristics of HPV154 positive children and viral loads in swab samples.
Figure 2.
Phylogenetic tree for HPV154 and related papillomaviruses.
Ninety one complete genomes were analyzed, including all gammapapillomaviruses as well as related genera but closer than betapapillomaviruses. HPV154 is indicated with an arrow. The tree was obtained by the maximum likelihood approach using RAxML software and rooted with the betapapillomavirus HPV5 and HPV9. Bootstrap support values are indicated in each branch as percentages. Genera are indicated at the rightmost side, while species of γ-PVs are to the right of brackets. The dotted key to the left of γ-PV11* shows species suggested in this work. The bar indicates the number of substitutions per site. * Proposed category and pending approval by ICTV. †Putative novel species. ‡: Uncloned HPV genome (not official type). The following species are represented by the types included in the tree: AsPV1, Apodemus sylvaticus papillomavirus 1; BPV, Bos taurus papillomavirus spp.; ChPV1, Capra hircus papillomavirus 1; CPV, Canis familiaris papillomavirus spp.; DdPV1, Delphinus delphis papillomavirus 1; HPV, Gammapapillomavirus spp.; McPV2, Mastomys coucha Papillomavirus 2; PphPV, Phocoena phocoena papillomavirus spp.; PsPV1, Phocoena spinipinnis Papillomavirus 1; TtPV, Tursiops truncatus Papillomavirus spp.
Table 2.
Sites of detection of gammapapillomaviruses.