Genus: Alphapapillomavirus


Genus: Alphapapillomavirus

Distinguishing features

Members of this genus preferentially infect the oral or anogenital mucosa in humans and primates. Members of certain species (e.g. Alphapapillomavirus 2 and Alphapapillomavirus 4) are also found in lesions of cutaneous sites. Specific members of certain species (e.g. Alphapapillomavirus 7 and Alphapapillomavirus 9) are considered as oncogenic in view of their regular presence in malignant tissue. All members of this genus code for a hydrophobic E5 protein, located at the 3′-end of the early region.

Virion

See discussion under family description

Genome organization and replication

See discussion under family description.

Antigenicity

See discussion under family description.

Biology

See discussion under family description.

Species demarcation criteria

Putative novel papillomavirus genome with complete genome sequence data available and that is <70% nucleotide identity across the L1 ORF to papillomaviruses within the genus (Figure 1.Alphapapillomavirus).

Figure 1.Alphapapillomavirus. Phylogenetic tree of members of the genus Alphapapillomavirus. The E1, E2, L2, and L1 nucleotide sequences of 343 papillomavirus isolates including representatives of all species and genera within the Papillomaviridae family were aligned as amino acid sequences using MUSCLE v7.221 (Edgar 2004). JModeltest2 (Darriba et al., 2012) was used to determine the optimal model of evolution (GTR + I + G) for the concatenated nucleotide sequences. Maximum likelihood (ML) trees were constructed using RAxML MPI v8.2.9 (Stamatakis 2006) implementing the GTR substitution model. ML bootstrap analysis used the autoMRE-based stopping criterion in RAxML. Following tree construction (tree available in the Resources section of the Papillomaviridae Report), the subtree corresponding to the genus Alphapapillomavirus was isolated. Tips are labelled with virus names and accession numbers; nodes are labelled with bootstrap support values.

Member species

Exemplar isolate of the species
SpeciesVirus nameIsolateAccession numberRefSeq numberAvailable sequenceVirus Abbrev.
Alphapapillomavirus 1human papillomavirus 32X74475NC_001586Complete genomeHPV32
Alphapapillomavirus 1human papillomavirus 42M73236Complete genomeHPV42
Alphapapillomavirus 2human papillomavirus 10X74465NC_001576Complete genomeHPV10
Alphapapillomavirus 2human papillomavirus 160TMAB745694Complete genomeHPV160
Alphapapillomavirus 2human papillomavirus 94AJ620211Complete genomeHPV94
Alphapapillomavirus 2human papillomavirus 125SIBX9FN547152Complete genomeHPV125
Alphapapillomavirus 2human papillomavirus 117a_wart10GQ246950Complete genomeHPV117
Alphapapillomavirus 2human papillomavirus 78XS2KC138720Complete genomeHPV78
Alphapapillomavirus 2human papillomavirus 28U31783Complete genomeHPV28
Alphapapillomavirus 2human papillomavirus 29U31784Complete genomeHPV29
Alphapapillomavirus 2human papillomavirus 3X74462Complete genomeHPV3
Alphapapillomavirus 2human papillomavirus 77Y15175Complete genomeHPV77
Alphapapillomavirus 3human papillomavirus 61U31793NC_001694Complete genomeHPV61
Alphapapillomavirus 3human papillomavirus 83AF151983Complete genomeHPV83
Alphapapillomavirus 3human papillomavirus 84CY10-452AF293960Complete genomeHPV84
Alphapapillomavirus 3human papillomavirus 86AF349909Complete genomeHPV86
Alphapapillomavirus 3human papillomavirus 89AF436128Complete genomeHPV89
Alphapapillomavirus 3human papillomavirus 87AJ400628Complete genomeHPV87
Alphapapillomavirus 3human papillomavirus 81AJ620209Complete genomeHPV81
Alphapapillomavirus 3human papillomavirus 62Qv18091AY395706Complete genomeHPV62
Alphapapillomavirus 3human papillomavirus 102Qv34077DQ080083Complete genomeHPV102
Alphapapillomavirus 3human papillomavirus 114GQ244463Complete genomeHPV114
Alphapapillomavirus 3human papillomavirus 72X94164Complete genomeHPV72
Alphapapillomavirus 4human papillomavirus 2X55964NC_001352Complete genomeHPV2
Alphapapillomavirus 4human papillomavirus 57X55965Complete genomeHPV57
Alphapapillomavirus 4human papillomavirus 27X74473Complete genomeHPV27
Alphapapillomavirus 5human papillomavirus 26X74472NC_001583Complete genomeHPV26
Alphapapillomavirus 5human papillomavirus 69AB027020Complete genomeHPV69
Alphapapillomavirus 5human papillomavirus 82AB027021Complete genomeHPV82
Alphapapillomavirus 5human papillomavirus 51M62877Complete genomeHPV51
Alphapapillomavirus 6human papillomavirus 30X74474NC_038889Complete genomeHPV30
Alphapapillomavirus 6human papillomavirus 66U31794Complete genomeHPV66
Alphapapillomavirus 6human papillomavirus 53X74482Complete genomeHPV53
Alphapapillomavirus 6human papillomavirus 56X74483Complete genomeHPV56
Alphapapillomavirus 7human papillomavirus 18X05015NC_001357Complete genomeHPV18
Alphapapillomavirus 7human papillomavirus 85AF131950Complete genomeHPV85
Alphapapillomavirus 7human papillomavirus 68Plasmid 952DQ080079Complete genomeHPV68
Alphapapillomavirus 7human papillomavirus 97Qv28597DQ080080Complete genomeHPV97
Alphapapillomavirus 7human papillomavirus 39M62849Complete genomeHPV39
Alphapapillomavirus 7human papillomavirus 70U21941Complete genomeHPV70
Alphapapillomavirus 7human papillomavirus 45X74479Complete genomeHPV45
Alphapapillomavirus 7human papillomavirus 59X77858Complete genomeHPV59
Alphapapillomavirus 8human papillomavirus 7X74463NC_001595Complete genomeHPV7
Alphapapillomavirus 8human papillomavirus 91AF419318Complete genomeHPV91
Alphapapillomavirus 8human papillomavirus 43AJ620205Complete genomeHPV43
Alphapapillomavirus 8human papillomavirus 40X74478Complete genomeHPV40
Alphapapillomavirus 9human papillomavirus 16K02718NC_001526Complete genomeHPV16
Alphapapillomavirus 9human papillomavirus 67D21208Complete genomeHPV67
Alphapapillomavirus 9human papillomavirus 58GN479D90400Complete genomeHPV58
Alphapapillomavirus 9human papillomavirus 31J04353Complete genomeHPV31
Alphapapillomavirus 9human papillomavirus 33M12732Complete genomeHPV33
Alphapapillomavirus 9human papillomavirus 35X74477Complete genomeHPV35
Alphapapillomavirus 9human papillomavirus 52X74481Complete genomeHPV52
Alphapapillomavirus 10human papillomavirus 6X00203NC_001355Complete genomeHPV6
Alphapapillomavirus 10human papillomavirus 74AE10AF436130Complete genomeHPV74
Alphapapillomavirus 10human papillomavirus 11M14119Complete genomeHPV11
Alphapapillomavirus 10human papillomavirus 44U31788Complete genomeHPV44
Alphapapillomavirus 10human papillomavirus 13X62843Complete genomeHPV13
Alphapapillomavirus 10Pan paniscus papillomavirus 1X62844Complete genomePpPV1
Alphapapillomavirus 11human papillomavirus 34X74476NC_001587Complete genomeHPV34
Alphapapillomavirus 11human papillomavirus 73X94165Complete genomeHPV73
Alphapapillomavirus 12Macaca mulata papillomavirus 1M60184NC_001678Complete genomeMmPV1
Alphapapillomavirus 12Macaca fascicularis papillomavirus 7Mac18EF558838Complete genomeMfPV7
Alphapapillomavirus 12Macaca fascicularis papillomavirus 3Mac26EF558839Complete genomeMfPV3
Alphapapillomavirus 12Macaca fascicularis papillomavirus 6Mac39EF558840Complete genomeMfPV6
Alphapapillomavirus 12Macaca fascicularis papillomavirus 4Mac54EF558841Complete genomeMfPV4
Alphapapillomavirus 12Macaca fascicularis papillomavirus 8Mac70EF558842Complete genomeMfPV8
Alphapapillomavirus 12Macaca fascicularis papillomavirus 5Mac76EF558843Complete genomeMfPV5
Alphapapillomavirus 12Macaca fascicularis papillomavirus 10Mac616EU490515Complete genomeMfPV10
Alphapapillomavirus 12Macaca fascicularis papillomavirus 9Mac592EU490516Complete genomeMfPV9
Alphapapillomavirus 12Macaca fascicularis papillomavirus 11Mac1637GQ227670Complete genomeMfPV11
Alphapapillomavirus 12Papio hamadryas papillomavirus 1Mac2085JF304764Complete genomePhPV1
Alphapapillomavirus 12Macaca fuscata papillomavirus 1OSCC1KT944080Complete genomeMfuPV1
Alphapapillomavirus 13human papillomavirus 54U37488NC_001676Complete genomeHPV54
Alphapapillomavirus 14human papillomavirus 71AB040456NC_039089Complete genomeHPV71
Alphapapillomavirus 14human papillomavirus 90AY057438Complete genomeHPV90
Alphapapillomavirus 14human papillomavirus 106Qv28897DQ080082Complete genomeHPV106
Alphapapillomavirus 14Colobus guereza papillomavirus 1GU014532Complete genomeCgPV1

Virus names, the choice of exemplar isolates, and virus abbreviations, are not official ICTV designations.

Related, unclassified viruses

Virus name

Accession number

Virus abbreviation

human papillomavirus mEV06c12b

MF588676

HPV-mEV06c12b

Virus names and virus abbreviations are not official ICTV designations.