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Unbiased Approach for Virus Detection in Skin Lesions

Bzhalava, Davit ; Johansson, Hanna K LU ; Ekström, Johanna LU ; Faust, Helena LU ; Moller, Birgitta ; Eklund, Carina ; Nordin, Peter ; Stenquist, Bo ; Paoli, John and Persson, Bengt , et al. (2013) In PLoS ONE 8(6).
Abstract
To assess presence of virus DNA in skin lesions, swab samples from 82 squamous cell carcinomas of the skin (SCCs), 60 actinic keratoses (AKs), paraffin-embedded biopsies from 28 SCCs and 72 kerathoacanthomas (KAs) and fresh-frozen biopsies from 92 KAs, 85 SCCs and 92 AKs were analyzed by high throughput sequencing (HTS) using 454 or Ion Torrent technology. We found total of 4,284 viral reads, out of which 4,168 were Human Papillomavirus (HPV)-related, belonging to 15 known (HPV8, HPV12, HPV20, HPV36, HPV38, HPV45, HPV57, HPV59, HPV104, HPV105, HPV107, HPV109, HPV124, HPV138, HPV147), four previously described putative (HPV 915 F 06 007 FD1, FA73, FA101, SE42) and two putatively new HPV types (SE46, SE47). SE42 was cloned, sequenced,... (More)
To assess presence of virus DNA in skin lesions, swab samples from 82 squamous cell carcinomas of the skin (SCCs), 60 actinic keratoses (AKs), paraffin-embedded biopsies from 28 SCCs and 72 kerathoacanthomas (KAs) and fresh-frozen biopsies from 92 KAs, 85 SCCs and 92 AKs were analyzed by high throughput sequencing (HTS) using 454 or Ion Torrent technology. We found total of 4,284 viral reads, out of which 4,168 were Human Papillomavirus (HPV)-related, belonging to 15 known (HPV8, HPV12, HPV20, HPV36, HPV38, HPV45, HPV57, HPV59, HPV104, HPV105, HPV107, HPV109, HPV124, HPV138, HPV147), four previously described putative (HPV 915 F 06 007 FD1, FA73, FA101, SE42) and two putatively new HPV types (SE46, SE47). SE42 was cloned, sequenced, designated as HPV155 and found to have 76% similarity to the most closely related known HPV type. In conclusion, an unbiased approach for viral DNA detection in skin tumors has found that, although some new putative HPVs were found, known HPV types constituted most of the viral DNA. (Less)
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organization
publishing date
type
Contribution to journal
publication status
published
subject
in
PLoS ONE
volume
8
issue
6
article number
e65953
publisher
Public Library of Science (PLoS)
external identifiers
  • wos:000321148400009
  • scopus:84879539262
  • pmid:23840382
ISSN
1932-6203
DOI
10.1371/journal.pone.0065953
language
English
LU publication?
yes
id
2ec1c975-39ba-4f2d-8576-1f7de0289a12 (old id 3974102)
date added to LUP
2016-04-01 13:33:03
date last changed
2022-04-21 22:15:00
@article{2ec1c975-39ba-4f2d-8576-1f7de0289a12,
  abstract     = {{To assess presence of virus DNA in skin lesions, swab samples from 82 squamous cell carcinomas of the skin (SCCs), 60 actinic keratoses (AKs), paraffin-embedded biopsies from 28 SCCs and 72 kerathoacanthomas (KAs) and fresh-frozen biopsies from 92 KAs, 85 SCCs and 92 AKs were analyzed by high throughput sequencing (HTS) using 454 or Ion Torrent technology. We found total of 4,284 viral reads, out of which 4,168 were Human Papillomavirus (HPV)-related, belonging to 15 known (HPV8, HPV12, HPV20, HPV36, HPV38, HPV45, HPV57, HPV59, HPV104, HPV105, HPV107, HPV109, HPV124, HPV138, HPV147), four previously described putative (HPV 915 F 06 007 FD1, FA73, FA101, SE42) and two putatively new HPV types (SE46, SE47). SE42 was cloned, sequenced, designated as HPV155 and found to have 76% similarity to the most closely related known HPV type. In conclusion, an unbiased approach for viral DNA detection in skin tumors has found that, although some new putative HPVs were found, known HPV types constituted most of the viral DNA.}},
  author       = {{Bzhalava, Davit and Johansson, Hanna K and Ekström, Johanna and Faust, Helena and Moller, Birgitta and Eklund, Carina and Nordin, Peter and Stenquist, Bo and Paoli, John and Persson, Bengt and Forslund, Ola and Dillner, Joakim}},
  issn         = {{1932-6203}},
  language     = {{eng}},
  number       = {{6}},
  publisher    = {{Public Library of Science (PLoS)}},
  series       = {{PLoS ONE}},
  title        = {{Unbiased Approach for Virus Detection in Skin Lesions}},
  url          = {{https://lup.lub.lu.se/search/files/3443965/4173533.pdf}},
  doi          = {{10.1371/journal.pone.0065953}},
  volume       = {{8}},
  year         = {{2013}},
}