Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance
| Autor(a) principal: | |
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| Data de Publicação: | 2015 |
| Outros Autores: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
| Tipo de documento: | Artigo |
| Idioma: | eng |
| Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
| Texto Completo: | https://doi.org/10.1371/journal.pmed.1001810 |
Resumo: | PMID: 25849352 WOS:000354825700001 |
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Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug ResistanceAn Individual-Patient- and Sequence-Level Meta-AnalysisBiotechnologyBiochemistryMolecular BiologyCell BiologySDG 3 - Good Health and Well-beingPMID: 25849352 WOS:000354825700001Regional and subtype-specific mutational patterns of HIV-1 transmitted drug resistance (TDR) are essential for informing first-line antiretroviral (ARV) therapy guidelines and designing diagnostic assays for use in regions where standard genotypic resistance testing is not affordable. We sought to understand the molecular epidemiology of TDR and to identify the HIV-1 drug-resistance mutations responsible for TDR in different regions and virus subtypes.We reviewed all GenBank submissions of HIV-1 reverse transcriptase sequences with or without protease and identified 287 studies published between March 1, 2000, and December 31, 2013, with more than 25 recently or chronically infected ARV-naïve individuals. These studies comprised 50,870 individuals from 111 countries. Each set of study sequences was analyzed for phylogenetic clustering and the presence of 93 surveillance drug-resistance mutations (SDRMs). The median overall TDR prevalence in sub-Saharan Africa (SSA), south/southeast Asia (SSEA), upper-income Asian countries, Latin America/Caribbean, Europe, and North America was 2.8%, 2.9%, 5.6%, 7.6%, 9.4%, and 11.5%, respectively. In SSA, there was a yearly 1.09-fold (95% CI: 1.05–1.14) increase in odds of TDR since national ARV scale-up attributable to an increase in non-nucleoside reverse transcriptase inhibitor (NNRTI) resistance. The odds of NNRTI-associated TDR also increased in Latin America/Caribbean (odds ratio [OR] = 1.16; 95% CI: 1.06–1.25), North America (OR = 1.19; 95% CI: 1.12–1.26), Europe (OR = 1.07; 95% CI: 1.01–1.13), and upper-income Asian countries (OR = 1.33; 95% CI: 1.12–1.55). In SSEA, there was no significant change in the odds of TDR since national ARV scale-up (OR = 0.97; 95% CI: 0.92–1.02). An analysis limited to sequences with mixtures at less than 0.5% of their nucleotide positions—a proxy for recent infection—yielded trends comparable to those obtained using the complete dataset. Four NNRTI SDRMs—K101E, K103N, Y181C, and G190A—accounted for >80% of NNRTI-associated TDR in all regions and subtypes. Sixteen nucleoside reverse transcriptase inhibitor (NRTI) SDRMs accounted for >69% of NRTI-associated TDR in all regions and subtypes. In SSA and SSEA, 89% of NNRTI SDRMs were associated with high-level resistance to nevirapine or efavirenz, whereas only 27% of NRTI SDRMs were associated with high-level resistance to zidovudine, lamivudine, tenofovir, or abacavir. Of 763 viruses with TDR in SSA and SSEA, 725 (95%) were genetically dissimilar; 38 (5%) formed 19 sequence pairs. Inherent limitations of this study are that some cohorts may not represent the broader regional population and that studies were heterogeneous with respect to duration of infection prior to sampling.Most TDR strains in SSA and SSEA arose independently, suggesting that ARV regimens with a high genetic barrier to resistance combined with improved patient adherence may mitigate TDR increases by reducing the generation of new ARV-resistant strains. A small number of NNRTI-resistance mutations were responsible for most cases of high-level resistance, suggesting that inexpensive point-mutation assays to detect these mutations may be useful for pre-therapy screening in regions with high levels of TDR. In the context of a public health approach to ARV therapy, a reliable point-of-care genotypic resistance test could identify which patients should receive standard first-line therapy and which should receive a protease-inhibitor-containing regimen.Global Health and Tropical Medicine (GHTM)Instituto de Higiene e Medicina Tropical (IHMT)TB, HIV and opportunistic diseases and pathogens (THOP)RUNRhee, Soo YonBlanco, Jose LuisJordan, Michael R.Taylor, JonathanLemey, PhilippeVarghese, ViciHamers, Raph L.Bertagnolio, Silviade Wit, Tobias F RinkeAghokeng, Avelin F.Albert, JanAvi, RadkoAvila-Rios, SantiagoBessong, Pascal O.Brooks, James I.Boucher, Charles A BBrumme, Zabrina L.Busch, Michael P.Bussmann, HermannChaix, Marie LaureChin, Bum SikD’Aquin, Toni T.De Gascun, Cillian F.Derache, AnneDescamps, DianeDeshpande, Alaka K.Djoko, Cyrille F.Eshleman, Susan H.Fleury, HerveFrange, PierreFujisaki, SeiichiroHarrigan, P. RichardHattori, JunkoHolguin, AfricaHunt, Gillian M.Ichimura, HiroshiKaleebu, PontianoKatzenstein, DavidKiertiburanakul, SasisopinKim, Jerome H.Kim, Sung SoonLi, YanpengLutsar, IrjaMorris, LynnNdembi, NicaiseNG, Kee PengParanjape, Ramesh S.Peeters, MartinePoljak, MarioPrice, Matt A.Ragonnet-Cronin, Manon L.Reyes-Terán, GustavoRolland, MorganeSirivichayakul, SuneeSmith, Davey M.Soares, Marcelo A.Soriano, Vincent V.Ssemwanga, DeogratiusStanojevic, MajaStefani, Mariane A.Sugiura, WataruSungkanuparph, SomnuekTanuri, AmilcarTee, Kok KengTruong, Hong Ha Mvan de Vijver, David A M CVidal, NicoleYang, ChunfuYang, RonggeYebra, GonzaloIoannidis, John P AVandamme, Anne MiekeShafer, Robert W.2018-05-14T22:02:21Z2015-04-012015-04-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttps://doi.org/10.1371/journal.pmed.1001810eng1549-1277PURE: 1731636http://www.scopus.com/inward/record.url?scp=84930531525&partnerID=8YFLogxKhttps://doi.org/10.1371/journal.pmed.1001810info: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:RCAAP2024-03-11T04:20:30Zoai:run.unl.pt:10362/36944Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireopendoar:71602024-03-20T03:30:43.261654Repositório 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 |
Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance An Individual-Patient- and Sequence-Level Meta-Analysis |
| title |
Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance |
| spellingShingle |
Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance Rhee, Soo Yon Biotechnology Biochemistry Molecular Biology Cell Biology SDG 3 - Good Health and Well-being |
| title_short |
Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance |
| title_full |
Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance |
| title_fullStr |
Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance |
| title_full_unstemmed |
Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance |
| title_sort |
Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance |
| author |
Rhee, Soo Yon |
| author_facet |
Rhee, Soo Yon Blanco, Jose Luis Jordan, Michael R. Taylor, Jonathan Lemey, Philippe Varghese, Vici Hamers, Raph L. Bertagnolio, Silvia de Wit, Tobias F Rinke Aghokeng, Avelin F. Albert, Jan Avi, Radko Avila-Rios, Santiago Bessong, Pascal O. Brooks, James I. Boucher, Charles A B Brumme, Zabrina L. Busch, Michael P. Bussmann, Hermann Chaix, Marie Laure Chin, Bum Sik D’Aquin, Toni T. De Gascun, Cillian F. Derache, Anne Descamps, Diane Deshpande, Alaka K. Djoko, Cyrille F. Eshleman, Susan H. Fleury, Herve Frange, Pierre Fujisaki, Seiichiro Harrigan, P. Richard Hattori, Junko Holguin, Africa Hunt, Gillian M. Ichimura, Hiroshi Kaleebu, Pontiano Katzenstein, David Kiertiburanakul, Sasisopin Kim, Jerome H. Kim, Sung Soon Li, Yanpeng Lutsar, Irja Morris, Lynn Ndembi, Nicaise NG, Kee Peng Paranjape, Ramesh S. Peeters, Martine Poljak, Mario Price, Matt A. Ragonnet-Cronin, Manon L. Reyes-Terán, Gustavo Rolland, Morgane Sirivichayakul, Sunee Smith, Davey M. Soares, Marcelo A. Soriano, Vincent V. Ssemwanga, Deogratius Stanojevic, Maja Stefani, Mariane A. Sugiura, Wataru Sungkanuparph, Somnuek Tanuri, Amilcar Tee, Kok Keng Truong, Hong Ha M van de Vijver, David A M C Vidal, Nicole Yang, Chunfu Yang, Rongge Yebra, Gonzalo Ioannidis, John P A Vandamme, Anne Mieke Shafer, Robert W. |
| author_role |
author |
| author2 |
Blanco, Jose Luis Jordan, Michael R. Taylor, Jonathan Lemey, Philippe Varghese, Vici Hamers, Raph L. Bertagnolio, Silvia de Wit, Tobias F Rinke Aghokeng, Avelin F. Albert, Jan Avi, Radko Avila-Rios, Santiago Bessong, Pascal O. Brooks, James I. Boucher, Charles A B Brumme, Zabrina L. Busch, Michael P. Bussmann, Hermann Chaix, Marie Laure Chin, Bum Sik D’Aquin, Toni T. De Gascun, Cillian F. Derache, Anne Descamps, Diane Deshpande, Alaka K. Djoko, Cyrille F. Eshleman, Susan H. Fleury, Herve Frange, Pierre Fujisaki, Seiichiro Harrigan, P. Richard Hattori, Junko Holguin, Africa Hunt, Gillian M. Ichimura, Hiroshi Kaleebu, Pontiano Katzenstein, David Kiertiburanakul, Sasisopin Kim, Jerome H. Kim, Sung Soon Li, Yanpeng Lutsar, Irja Morris, Lynn Ndembi, Nicaise NG, Kee Peng Paranjape, Ramesh S. Peeters, Martine Poljak, Mario Price, Matt A. Ragonnet-Cronin, Manon L. Reyes-Terán, Gustavo Rolland, Morgane Sirivichayakul, Sunee Smith, Davey M. Soares, Marcelo A. Soriano, Vincent V. Ssemwanga, Deogratius Stanojevic, Maja Stefani, Mariane A. Sugiura, Wataru Sungkanuparph, Somnuek Tanuri, Amilcar Tee, Kok Keng Truong, Hong Ha M van de Vijver, David A M C Vidal, Nicole Yang, Chunfu Yang, Rongge Yebra, Gonzalo Ioannidis, John P A Vandamme, Anne Mieke Shafer, Robert W. |
| author2_role |
author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author |
| dc.contributor.none.fl_str_mv |
Global Health and Tropical Medicine (GHTM) Instituto de Higiene e Medicina Tropical (IHMT) TB, HIV and opportunistic diseases and pathogens (THOP) RUN |
| dc.contributor.author.fl_str_mv |
Rhee, Soo Yon Blanco, Jose Luis Jordan, Michael R. Taylor, Jonathan Lemey, Philippe Varghese, Vici Hamers, Raph L. Bertagnolio, Silvia de Wit, Tobias F Rinke Aghokeng, Avelin F. Albert, Jan Avi, Radko Avila-Rios, Santiago Bessong, Pascal O. Brooks, James I. Boucher, Charles A B Brumme, Zabrina L. Busch, Michael P. Bussmann, Hermann Chaix, Marie Laure Chin, Bum Sik D’Aquin, Toni T. De Gascun, Cillian F. Derache, Anne Descamps, Diane Deshpande, Alaka K. Djoko, Cyrille F. Eshleman, Susan H. Fleury, Herve Frange, Pierre Fujisaki, Seiichiro Harrigan, P. Richard Hattori, Junko Holguin, Africa Hunt, Gillian M. Ichimura, Hiroshi Kaleebu, Pontiano Katzenstein, David Kiertiburanakul, Sasisopin Kim, Jerome H. Kim, Sung Soon Li, Yanpeng Lutsar, Irja Morris, Lynn Ndembi, Nicaise NG, Kee Peng Paranjape, Ramesh S. Peeters, Martine Poljak, Mario Price, Matt A. Ragonnet-Cronin, Manon L. Reyes-Terán, Gustavo Rolland, Morgane Sirivichayakul, Sunee Smith, Davey M. Soares, Marcelo A. Soriano, Vincent V. Ssemwanga, Deogratius Stanojevic, Maja Stefani, Mariane A. Sugiura, Wataru Sungkanuparph, Somnuek Tanuri, Amilcar Tee, Kok Keng Truong, Hong Ha M van de Vijver, David A M C Vidal, Nicole Yang, Chunfu Yang, Rongge Yebra, Gonzalo Ioannidis, John P A Vandamme, Anne Mieke Shafer, Robert W. |
| dc.subject.por.fl_str_mv |
Biotechnology Biochemistry Molecular Biology Cell Biology SDG 3 - Good Health and Well-being |
| topic |
Biotechnology Biochemistry Molecular Biology Cell Biology SDG 3 - Good Health and Well-being |
| description |
PMID: 25849352 WOS:000354825700001 |
| publishDate |
2015 |
| dc.date.none.fl_str_mv |
2015-04-01 2015-04-01T00:00:00Z 2018-05-14T22:02:21Z |
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info:eu-repo/semantics/publishedVersion |
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info:eu-repo/semantics/article |
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article |
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publishedVersion |
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https://doi.org/10.1371/journal.pmed.1001810 |
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https://doi.org/10.1371/journal.pmed.1001810 |
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eng |
| language |
eng |
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1549-1277 PURE: 1731636 http://www.scopus.com/inward/record.url?scp=84930531525&partnerID=8YFLogxK https://doi.org/10.1371/journal.pmed.1001810 |
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info:eu-repo/semantics/openAccess |
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openAccess |
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application/pdf |
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