A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A

Detalhes bibliográficos
Autor(a) principal: Mlakar, J
Data de Publicação: 2017
Outros Autores: Lunar, Maja M, Abecasis, A B, Vandamme, A-M, Tomažič, J, Vovko, T D, Pečavar, B, Volčanšek, G, Poljak, M
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
Texto Completo: http://hdl.handle.net/10362/36494
Resumo: 21st International BioInformatics Workshop on Virus Evolution and Molecular Epidemiology
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spelling A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype AJournal ArticleSDG 3 - Good Health and Well-being21st International BioInformatics Workshop on Virus Evolution and Molecular EpidemiologyIn Slovenia, a small country in Central Europe, less than 1 per 1,000 inhabitants are estimated to be infected with HIV-1. As in most of the Central and Western European countries, the majority of patients diagnosed with HIV-1 are infected with subtype B. However, due to migration, other subtypes can become more prevalent in the country. The aim of this study was to determine HIV-1 subtypes circulating in Slovenia and to further examine the molecular epidemiology of subtype A. A total of 367 Slovenian HIV-1 sequences were included in the study, representing 58% of all patients diagnosed in Slovenia until the end of the year 2013. Subtype was assigned by employing different HIV subtyping tools coupled with Maximum likelihood phylogenetic analysis. The latter was performed to examine the molecular epidemiology of subtype A as well. Identified clusters of Slovenian subtype A sequences were further analyzed for the determination of the time of the most recent common ancestor (tMRCA) by using Monte Carlo Markov chain (MCMC) method available in BEAST 2.1.3 software. We determined the prevalence of subtype B to be 85.3%, while subtype A was the most prevalent non-B subtype found in 18 patients (4.9%), followed by CRF02_AG (2.4%), subtype C (1.1%), subtypes D, G and CRF01_AE (0.8% each) and subtypes F1 and CRF22_01A1 (0.3% each). Subtypes could not be assigned to 12 sequences (3.3%). The phylogenetic tree obtained by ML analysis of the subtype A and subtype A related recombinants revealed that Slovenian sequences were part of 6 major international clusters. Two clusters consisting only of Slovenian sequences were identified and thus additional MCMC analysis was employed. Results of a Slovenian cluster of 4 subtype A sequences showed a posterior probability value of 1 and a tMRCA between the years 1985 and 2008, with a mean in the year 2001. In conclusion, in a Central European country, where subtype B predominates, the second most common subtype was found to be subtype A. Non-B subtypes were observed in one out of seven patients in Slovenia, a fraction that is not negligible, thus proving importance of surveillance of HIV subtype diversity and corresponding molecular epidemiology of non-B subtypes.Instituto de Higiene e Medicina Tropical (IHMT)Global Health and Tropical Medicine (GHTM)TB, HIV and opportunistic diseases and pathogens (THOP)RUNMlakar, JLunar, Maja MAbecasis, A BVandamme, A-MTomažič, JVovko, T DPečavar, BVolčanšek, GPoljak, M2018-05-10T22:18:20Z2017-032017-03-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10362/36494eng2057-1577PURE: 3257150https://doi.org/10.1093/ve/vew036.035info:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-03-11T04:19:54Zoai:run.unl.pt:10362/36494Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-20T03:30:31.367661Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse
dc.title.none.fl_str_mv A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A
title A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A
spellingShingle A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A
Mlakar, J
Journal Article
SDG 3 - Good Health and Well-being
title_short A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A
title_full A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A
title_fullStr A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A
title_full_unstemmed A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A
title_sort A36 Prevalence of HIV-1 subtypes in Slovenia with an emphasis on molecular and phylogenetic investigation of subtype A
author Mlakar, J
author_facet Mlakar, J
Lunar, Maja M
Abecasis, A B
Vandamme, A-M
Tomažič, J
Vovko, T D
Pečavar, B
Volčanšek, G
Poljak, M
author_role author
author2 Lunar, Maja M
Abecasis, A B
Vandamme, A-M
Tomažič, J
Vovko, T D
Pečavar, B
Volčanšek, G
Poljak, M
author2_role author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Instituto de Higiene e Medicina Tropical (IHMT)
Global Health and Tropical Medicine (GHTM)
TB, HIV and opportunistic diseases and pathogens (THOP)
RUN
dc.contributor.author.fl_str_mv Mlakar, J
Lunar, Maja M
Abecasis, A B
Vandamme, A-M
Tomažič, J
Vovko, T D
Pečavar, B
Volčanšek, G
Poljak, M
dc.subject.por.fl_str_mv Journal Article
SDG 3 - Good Health and Well-being
topic Journal Article
SDG 3 - Good Health and Well-being
description 21st International BioInformatics Workshop on Virus Evolution and Molecular Epidemiology
publishDate 2017
dc.date.none.fl_str_mv 2017-03
2017-03-01T00:00:00Z
2018-05-10T22:18:20Z
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv http://hdl.handle.net/10362/36494
url http://hdl.handle.net/10362/36494
dc.language.iso.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 2057-1577
PURE: 3257150
https://doi.org/10.1093/ve/vew036.035
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eu_rights_str_mv openAccess
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instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação
instacron:RCAAP
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reponame_str Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)
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