Table 6.
Global Prevalence of HPV16A Lineages (Upper Panel) and Proportion of Nonrandomly Introgressed Archaic Alleles into Modern Human Ancestors (Lower Panel).
| Human papillomavirus 16A lineages | Geography |
Ref. | ||
|---|---|---|---|---|
| Sub-Saharan Africa | West Eurasia | East Eurasia | ||
| HPV16A1-3 | <5% | 93% | 25-91% | This study |
| HPV16A4 | Absent | ∼1% | 60% | This study |
| Host’s genome loci directly involved in PVs life-cycle | ||||
| Neanderthal ancestry loci | Absent | 64% | 62% | Sankararaman et al. (2014) |
| Loci involved in keratinocyte differentiation | Absent | 40–70% | 40–66% | Vernot and Akey (2014) |
| HLA I loci (innate immunity) | <7% | 52–59% | 72–82% | Abi-Rached et al. (2011) |
| Toll-like receptor loci (innate immunity) | Absent | 15–39% | 17–51% | Dannemann et al. (2015) |
| APOBEC3A deletion (innate immunity) | <1% | 7% | 14-93% | Kidd et al. (2007) |
Note.—A selection of host’s genome loci is listed, directly involved in the Papillomavirus life-cycle through keratinocyte differentiation and innate immunity.