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Deep sequencing extends the diversity of human papillomaviruses in human skin.

Bzhalava, Davit LU ; Mühr, Laila Sara Arroyo; Lagheden, Camilla LU ; Ekström, Johanna LU ; Forslund, Ola LU ; Dillner, Joakim LU and Hultin, Emilie (2014) In Scientific Reports 4(Jul 24).
Abstract
Most viruses in human skin are known to be human papillomaviruses (HPVs). Previous sequencing of skin samples has identified 273 different cutaneous HPV types, including 47 previously unknown types. In the present study, we wished to extend prior studies using deeper sequencing. This deeper sequencing without prior PCR of a pool of 142 whole genome amplified skin lesions identified 23 known HPV types, 3 novel putative HPV types and 4 non-HPV viruses. The complete sequence was obtained for one of the known putative types and almost the complete sequence was obtained for one of the novel putative types. In addition, sequencing of amplimers from HPV consensus PCR of 326 skin lesions detected 385 different HPV types, including 226 previously... (More)
Most viruses in human skin are known to be human papillomaviruses (HPVs). Previous sequencing of skin samples has identified 273 different cutaneous HPV types, including 47 previously unknown types. In the present study, we wished to extend prior studies using deeper sequencing. This deeper sequencing without prior PCR of a pool of 142 whole genome amplified skin lesions identified 23 known HPV types, 3 novel putative HPV types and 4 non-HPV viruses. The complete sequence was obtained for one of the known putative types and almost the complete sequence was obtained for one of the novel putative types. In addition, sequencing of amplimers from HPV consensus PCR of 326 skin lesions detected 385 different HPV types, including 226 previously unknown putative types. In conclusion, metagenomic deep sequencing of human skin samples identified no less than 396 different HPV types in human skin, out of which 229 putative HPV types were previously unknown. (Less)
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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Scientific Reports
volume
4
issue
Jul 24
publisher
Nature Publishing Group
external identifiers
  • pmid:25055967
  • wos:000339420300005
  • scopus:84904803586
ISSN
2045-2322
DOI
10.1038/srep05807
language
English
LU publication?
yes
id
d084e518-eb49-4819-b6ba-b5b01ebd7270 (old id 4581408)
alternative location
http://www.ncbi.nlm.nih.gov/pubmed/25055967?dopt=Abstract
date added to LUP
2014-08-09 14:48:06
date last changed
2017-11-05 03:56:58
@article{d084e518-eb49-4819-b6ba-b5b01ebd7270,
  abstract     = {Most viruses in human skin are known to be human papillomaviruses (HPVs). Previous sequencing of skin samples has identified 273 different cutaneous HPV types, including 47 previously unknown types. In the present study, we wished to extend prior studies using deeper sequencing. This deeper sequencing without prior PCR of a pool of 142 whole genome amplified skin lesions identified 23 known HPV types, 3 novel putative HPV types and 4 non-HPV viruses. The complete sequence was obtained for one of the known putative types and almost the complete sequence was obtained for one of the novel putative types. In addition, sequencing of amplimers from HPV consensus PCR of 326 skin lesions detected 385 different HPV types, including 226 previously unknown putative types. In conclusion, metagenomic deep sequencing of human skin samples identified no less than 396 different HPV types in human skin, out of which 229 putative HPV types were previously unknown.},
  articleno    = {5807},
  author       = {Bzhalava, Davit and Mühr, Laila Sara Arroyo and Lagheden, Camilla and Ekström, Johanna and Forslund, Ola and Dillner, Joakim and Hultin, Emilie},
  issn         = {2045-2322},
  language     = {eng},
  number       = {Jul 24},
  publisher    = {Nature Publishing Group},
  series       = {Scientific Reports},
  title        = {Deep sequencing extends the diversity of human papillomaviruses in human skin.},
  url          = {http://dx.doi.org/10.1038/srep05807},
  volume       = {4},
  year         = {2014},
}