Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness.
As part of a virus discovery investigation using a metagenomic approach, a highly divergent novel Human papillomavirus type was identified in pooled convenience nasal/oropharyngeal swab samples collected from patients with febrile respiratory illness. Phylogenetic analysis of the whole genome and th...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2013-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC3600855?pdf=render |
| _version_ | 1818245843465011200 |
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| author | John L Mokili Bas E Dutilh Yan Wei Lim Bradley S Schneider Travis Taylor Matthew R Haynes David Metzgar Christopher A Myers Patrick J Blair Bahador Nosrat Nathan D Wolfe Forest Rohwer |
| author_facet | John L Mokili Bas E Dutilh Yan Wei Lim Bradley S Schneider Travis Taylor Matthew R Haynes David Metzgar Christopher A Myers Patrick J Blair Bahador Nosrat Nathan D Wolfe Forest Rohwer |
| author_sort | John L Mokili |
| collection | DOAJ |
| description | As part of a virus discovery investigation using a metagenomic approach, a highly divergent novel Human papillomavirus type was identified in pooled convenience nasal/oropharyngeal swab samples collected from patients with febrile respiratory illness. Phylogenetic analysis of the whole genome and the L1 gene reveals that the new HPV identified in this study clusters with previously described gamma papillomaviruses, sharing only 61.1% (whole genome) and 63.1% (L1) sequence identity with its closest relative in the Papillomavirus episteme (PAVE) database. This new virus was named HPV_SD2 pending official classification. The complete genome of HPV-SD2 is 7,299 bp long (36.3% G/C) and contains 7 open reading frames (L2, L1, E6, E7, E1, E2 and E4) and a non-coding long control region (LCR) between L1 and E6. The metagenomic procedures, coupled with the bioinformatic methods described herein are well suited to detect small circular genomes such as those of human papillomaviruses. |
| first_indexed | 2024-12-12T14:39:21Z |
| format | Article |
| id | doaj.art-1974935591954cd2aee6f7bd2c2af152 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-12T14:39:21Z |
| publishDate | 2013-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-1974935591954cd2aee6f7bd2c2af1522022-12-22T00:21:18ZengPublic Library of Science (PLoS)PLoS ONE1932-62032013-01-0183e5840410.1371/journal.pone.0058404Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness.John L MokiliBas E DutilhYan Wei LimBradley S SchneiderTravis TaylorMatthew R HaynesDavid MetzgarChristopher A MyersPatrick J BlairBahador NosratNathan D WolfeForest RohwerAs part of a virus discovery investigation using a metagenomic approach, a highly divergent novel Human papillomavirus type was identified in pooled convenience nasal/oropharyngeal swab samples collected from patients with febrile respiratory illness. Phylogenetic analysis of the whole genome and the L1 gene reveals that the new HPV identified in this study clusters with previously described gamma papillomaviruses, sharing only 61.1% (whole genome) and 63.1% (L1) sequence identity with its closest relative in the Papillomavirus episteme (PAVE) database. This new virus was named HPV_SD2 pending official classification. The complete genome of HPV-SD2 is 7,299 bp long (36.3% G/C) and contains 7 open reading frames (L2, L1, E6, E7, E1, E2 and E4) and a non-coding long control region (LCR) between L1 and E6. The metagenomic procedures, coupled with the bioinformatic methods described herein are well suited to detect small circular genomes such as those of human papillomaviruses.http://europepmc.org/articles/PMC3600855?pdf=render |
| spellingShingle | John L Mokili Bas E Dutilh Yan Wei Lim Bradley S Schneider Travis Taylor Matthew R Haynes David Metzgar Christopher A Myers Patrick J Blair Bahador Nosrat Nathan D Wolfe Forest Rohwer Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness. PLoS ONE |
| title | Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness. |
| title_full | Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness. |
| title_fullStr | Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness. |
| title_full_unstemmed | Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness. |
| title_short | Identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness. |
| title_sort | identification of a novel human papillomavirus by metagenomic analysis of samples from patients with febrile respiratory illness |
| url | http://europepmc.org/articles/PMC3600855?pdf=render |
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