The Changing Epidemiological Profile of HIV-1 Subtype B Epidemic in Ukraine
While HIV-1 subtype B has caused a large epidemic in the Western world, its transmission in Ukraine remains poorly understood. We assessed the genetic diversity of HIV-1 subtype B viruses circulating in Ukraine, characterized the transmission group structure, and estimated key evolutionary and epide...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Mary Ann Liebert, Inc., publishers
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6360399/ https://www.ncbi.nlm.nih.gov/pubmed/30430838 http://dx.doi.org/10.1089/aid.2018.0167 |
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author | Vasylyeva, Tetyana I. Liulchuk, Mariia du Plessis, Louis Fearnhill, Esther Zadorozhna, Victoriia Babii, Nataliia Scherbinska, Alla Novitsky, Vladimir Pybus, Oliver G. Faria, Nuno R. |
author_facet | Vasylyeva, Tetyana I. Liulchuk, Mariia du Plessis, Louis Fearnhill, Esther Zadorozhna, Victoriia Babii, Nataliia Scherbinska, Alla Novitsky, Vladimir Pybus, Oliver G. Faria, Nuno R. |
author_sort | Vasylyeva, Tetyana I. |
collection | PubMed |
description | While HIV-1 subtype B has caused a large epidemic in the Western world, its transmission in Ukraine remains poorly understood. We assessed the genetic diversity of HIV-1 subtype B viruses circulating in Ukraine, characterized the transmission group structure, and estimated key evolutionary and epidemiological parameters. We analyzed 120 HIV-1 subtype B pol sequences (including 46 newly generated) sampled from patients residing in 11 regions of Ukraine between 2002 and 2017. Phylogenies were estimated using maximum likelihood and Bayesian phylogenetic methods. A Bayesian molecular clock coalescent analysis was used to estimate effective population size dynamics and date the most recent common ancestors of identified clades. A phylodynamic birth–death model was used to estimate the effective reproductive number (R(e)) of these clades. We identified two phylogenetically distinct predominantly Ukrainian (≥75%) clades of HIV-1 subtype B. We found no significant transmission group structure for either clade, suggesting frequent mixing among transmission groups. The estimated dates of origin of both subtype B clades were around early 1970s, similar to the introduction of HIV-1 subtype A into Ukraine. R(e) was estimated to be 1.42 [95% highest posterior density (HPD) 1.26–1.56] for Clade 1 and 1.69 (95% HPD 1.49–1.84) for Clade 2. Evidently, the subtype B epidemic in the country is no longer concentrated in specific geographical regions or transmission groups. The study results highlight the necessity for strengthening preventive and monitoring efforts to reduce the further spread of HIV-1 subtype B. |
format | Online Article Text |
id | pubmed-6360399 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Mary Ann Liebert, Inc., publishers |
record_format | MEDLINE/PubMed |
spelling | pubmed-63603992019-02-04 The Changing Epidemiological Profile of HIV-1 Subtype B Epidemic in Ukraine Vasylyeva, Tetyana I. Liulchuk, Mariia du Plessis, Louis Fearnhill, Esther Zadorozhna, Victoriia Babii, Nataliia Scherbinska, Alla Novitsky, Vladimir Pybus, Oliver G. Faria, Nuno R. AIDS Res Hum Retroviruses Epidemiology While HIV-1 subtype B has caused a large epidemic in the Western world, its transmission in Ukraine remains poorly understood. We assessed the genetic diversity of HIV-1 subtype B viruses circulating in Ukraine, characterized the transmission group structure, and estimated key evolutionary and epidemiological parameters. We analyzed 120 HIV-1 subtype B pol sequences (including 46 newly generated) sampled from patients residing in 11 regions of Ukraine between 2002 and 2017. Phylogenies were estimated using maximum likelihood and Bayesian phylogenetic methods. A Bayesian molecular clock coalescent analysis was used to estimate effective population size dynamics and date the most recent common ancestors of identified clades. A phylodynamic birth–death model was used to estimate the effective reproductive number (R(e)) of these clades. We identified two phylogenetically distinct predominantly Ukrainian (≥75%) clades of HIV-1 subtype B. We found no significant transmission group structure for either clade, suggesting frequent mixing among transmission groups. The estimated dates of origin of both subtype B clades were around early 1970s, similar to the introduction of HIV-1 subtype A into Ukraine. R(e) was estimated to be 1.42 [95% highest posterior density (HPD) 1.26–1.56] for Clade 1 and 1.69 (95% HPD 1.49–1.84) for Clade 2. Evidently, the subtype B epidemic in the country is no longer concentrated in specific geographical regions or transmission groups. The study results highlight the necessity for strengthening preventive and monitoring efforts to reduce the further spread of HIV-1 subtype B. Mary Ann Liebert, Inc., publishers 2019-02-01 2019-01-31 /pmc/articles/PMC6360399/ /pubmed/30430838 http://dx.doi.org/10.1089/aid.2018.0167 Text en © Tetyana I. Vasylyeva et al. 2019; Published by Mary Ann Liebert, Inc. This Open Access article is distributed under the terms of the Creative Commons License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Epidemiology Vasylyeva, Tetyana I. Liulchuk, Mariia du Plessis, Louis Fearnhill, Esther Zadorozhna, Victoriia Babii, Nataliia Scherbinska, Alla Novitsky, Vladimir Pybus, Oliver G. Faria, Nuno R. The Changing Epidemiological Profile of HIV-1 Subtype B Epidemic in Ukraine |
title | The Changing Epidemiological Profile of HIV-1 Subtype B Epidemic in Ukraine |
title_full | The Changing Epidemiological Profile of HIV-1 Subtype B Epidemic in Ukraine |
title_fullStr | The Changing Epidemiological Profile of HIV-1 Subtype B Epidemic in Ukraine |
title_full_unstemmed | The Changing Epidemiological Profile of HIV-1 Subtype B Epidemic in Ukraine |
title_short | The Changing Epidemiological Profile of HIV-1 Subtype B Epidemic in Ukraine |
title_sort | changing epidemiological profile of hiv-1 subtype b epidemic in ukraine |
topic | Epidemiology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6360399/ https://www.ncbi.nlm.nih.gov/pubmed/30430838 http://dx.doi.org/10.1089/aid.2018.0167 |
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