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

SpeciesVirus name(s)Exemplar isolateExemplar accession numberExemplar RefSeq numberAvailable sequenceOther isolatesOther isolate accession numbersVirus abbreviationIsolate abbreviation
Alphapapillomavirus 1human papillomavirus 32X74475NC_001586Complete genomeHPV32
Alphapapillomavirus 1human papillomavirus 42M73236HPV42
Alphapapillomavirus 2human papillomavirus 10X74465NC_001576Complete genomeHPV10
Alphapapillomavirus 2human papillomavirus 160TMAB745694HPV160
Alphapapillomavirus 2human papillomavirus 94AJ620211HPV94
Alphapapillomavirus 2human papillomavirus 125SIBX9FN547152HPV125
Alphapapillomavirus 2human papillomavirus 117a_wart10GQ246950HPV117
Alphapapillomavirus 2human papillomavirus 78XS2KC138720HPV78
Alphapapillomavirus 2human papillomavirus 28U31783HPV28
Alphapapillomavirus 2human papillomavirus 29U31784HPV29
Alphapapillomavirus 2human papillomavirus 3X74462HPV3
Alphapapillomavirus 2human papillomavirus 77Y15175HPV77
Alphapapillomavirus 3human papillomavirus 61U31793NC_001694Complete genomeHPV61
Alphapapillomavirus 3human papillomavirus 83AF151983HPV83
Alphapapillomavirus 3human papillomavirus 84AF293960HPV84
Alphapapillomavirus 3human papillomavirus 86AF349909HPV86
Alphapapillomavirus 3human papillomavirus 89AF436128HPV89
Alphapapillomavirus 3human papillomavirus 87AJ400628HPV87
Alphapapillomavirus 3human papillomavirus 81AJ620209HPV81
Alphapapillomavirus 3human papillomavirus 62Qv18091AY395706HPV62
Alphapapillomavirus 3human papillomavirus 102Qv34077DQ080083HPV102
Alphapapillomavirus 3human papillomavirus 114GQ244463HPV114
Alphapapillomavirus 3human papillomavirus 72X94164HPV72
Alphapapillomavirus 4human papillomavirus 2X55964NC_001352Complete genomeHPV2
Alphapapillomavirus 4human papillomavirus 57X55965HPV57
Alphapapillomavirus 4human papillomavirus 27X74473HPV27
Alphapapillomavirus 5human papillomavirus 26X74472NC_001583Complete genomeHPV26
Alphapapillomavirus 5human papillomavirus 69AB027020HPV69
Alphapapillomavirus 5human papillomavirus 82AB027021HPV82
Alphapapillomavirus 5human papillomavirus 51M62877HPV51
Alphapapillomavirus 6human papillomavirus 30X74474NC_038889Complete genomeHPV30
Alphapapillomavirus 6human papillomavirus 66U31794HPV66
Alphapapillomavirus 6human papillomavirus 53X74482HPV53
Alphapapillomavirus 6human papillomavirus 56X74483HPV56
Alphapapillomavirus 7human papillomavirus 18X05015NC_001357Complete genomeHPV18
Alphapapillomavirus 7human papillomavirus 85AF131950HPV85
Alphapapillomavirus 7human papillomavirus 68Plasmid 952DQ080079HPV68
Alphapapillomavirus 7human papillomavirus 97Qv28597DQ080080HPV97
Alphapapillomavirus 7human papillomavirus 39M62849HPV39
Alphapapillomavirus 7human papillomavirus 70U21941HPV70
Alphapapillomavirus 7human papillomavirus 45X74479HPV45
Alphapapillomavirus 7human papillomavirus 59X77858HPV59
Alphapapillomavirus 8human papillomavirus 7X74463NC_001595Complete genomeHPV7
Alphapapillomavirus 8human papillomavirus 91AF419318HPV91
Alphapapillomavirus 8human papillomavirus 43AJ620205HPV43
Alphapapillomavirus 8human papillomavirus 40X74478HPV40
Alphapapillomavirus 9human papillomavirus 16K02718NC_001526Complete genomeHPV16
Alphapapillomavirus 9human papillomavirus 67D21208HPV67
Alphapapillomavirus 9human papillomavirus 58GN479D90400HPV58
Alphapapillomavirus 9human papillomavirus 31J04353HPV31
Alphapapillomavirus 9human papillomavirus 33M12732HPV33
Alphapapillomavirus 9human papillomavirus 35X74477HPV35
Alphapapillomavirus 9human papillomavirus 52X74481HPV52
Alphapapillomavirus 10human papillomavirus 6X00203NC_001355Complete genomeHPV6
Alphapapillomavirus 10human papillomavirus 74AE10AF436130HPV74
Alphapapillomavirus 10human papillomavirus 11M14119HPV11
Alphapapillomavirus 10human papillomavirus 44U31788HPV44
Alphapapillomavirus 10human papillomavirus 13X62843HPV13
Alphapapillomavirus 10Pan paniscus papillomavirus 1X62844PpPV1
Alphapapillomavirus 11human papillomavirus 34X74476NC_001587Complete genomeHPV34
Alphapapillomavirus 11human papillomavirus 73X94165HPV73
Alphapapillomavirus 12Macaca mulata papillomavirus 1M60184NC_001678Complete genomeMmPV1
Alphapapillomavirus 12Macaca fascicularis papillomavirus 7Mac18EF558838MfPV7
Alphapapillomavirus 12Macaca fascicularis papillomavirus 3Mac26EF558839MfPV3
Alphapapillomavirus 12Macaca fascicularis papillomavirus 6Mac39EF558840MfPV6
Alphapapillomavirus 12Macaca fascicularis papillomavirus 4Mac54EF558841MfPV4
Alphapapillomavirus 12Macaca fascicularis papillomavirus 8Mac70EF558842MfPV8
Alphapapillomavirus 12Macaca fascicularis papillomavirus 5Mac76EF558843MfPV5
Alphapapillomavirus 12Macaca fascicularis papillomavirus 10Mac616EU490515MfPV10
Alphapapillomavirus 12Macaca fascicularis papillomavirus 9Mac592EU490516MfPV9
Alphapapillomavirus 12Macaca fascicularis papillomavirus 11Mac1637GQ227670MfPV11
Alphapapillomavirus 12Papio hamadryas papillomavirus 1Mac2085JF304764PhPV1
Alphapapillomavirus 12Macaca fuscata papillomavirus 1OSCC1KT944080MfuPV1
Alphapapillomavirus 13human papillomavirus 54U37488NC_001676Complete genomeHPV54
Alphapapillomavirus 14human papillomavirus 71AB040456NC_039089Complete genomeHPV71
Alphapapillomavirus 14human papillomavirus 90AY057438HPV90
Alphapapillomavirus 14human papillomavirus 106Qv28897DQ080082HPV106
Alphapapillomavirus 14Colobus guereza papillomavirus 1GU014532CgPV1

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.