Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South Korea
Abstract In Korea, subtype B is the predominant variant of HIV-1, but full genome sequencing and analysis of its viral variants are lacking. We performed near full-length genome (NFLG) sequencing and phylogenetic and recombination analyses of fifty plasma samples from HIV-positive men who have sex w...
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doaj-9332799b8a074a4bad57a7e4ce7f0f7e2021-02-21T12:32:24ZengNature Publishing GroupScientific Reports2045-23222021-02-011111910.1038/s41598-021-82872-3Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South KoreaSangmi Ryou0Myeongsu Yoo1Kisoon Kim2Sangsoo Kim3Sang Il Kim4Youn Jeong Kim5Dae Won Park6Jun Yong Choi7Hyo Youl Kim8Jung Ho Kim9Joon Young Song10Shin-Woo Kim11Hyun-Ha Chang12Bo Youl Choi13Mee-Kyung Kee14Division of Viral Disease Research, Center for Infectious Diseases Research, Korea National Institute of HealthDivision of Viral Disease Research, Center for Infectious Diseases Research, Korea National Institute of HealthDivision of Viral Disease Research, Center for Infectious Diseases Research, Korea National Institute of HealthDepartment of Bioinformatics and Life Science, Soongsil UniversityDivision of Infectious Disease, Department of Internal Medicine, Seoul St. Mary’s Hospital, College of Medicine, The Catholic University of KoreaDivision of Infectious Disease, Department of Internal Medicine, Seoul St. Mary’s Hospital, College of Medicine, The Catholic University of KoreaDivision of Infectious Disease, Department of Internal Medicine, Seoul St. Mary’s Hospital, College of Medicine, The Catholic University of KoreaDepartment of Internal Medicine and AIDS Research Institute, Yonsei University College of MedicineDepartment of Internal Medicine, Yonsei University Wonju College of MedicineDepartment of Internal Medicine and AIDS Research Institute, Yonsei University College of MedicineDivision of Infectious Disease, Department of Internal Medicine, Korea University College of MedicineDepartment of Internal Medicine, School of Medicine, Kyungpook National UniversityDepartment of Internal Medicine, School of Medicine, Kyungpook National UniversityDepartment of Preventive Medicine, College of Medicine, Hanyang UniversityDivision of Viral Disease Research, Center for Infectious Diseases Research, Korea National Institute of HealthAbstract In Korea, subtype B is the predominant variant of HIV-1, but full genome sequencing and analysis of its viral variants are lacking. We performed near full-length genome (NFLG) sequencing and phylogenetic and recombination analyses of fifty plasma samples from HIV-positive men who have sex with men (MSM) from a Korea HIV/AIDS cohort study. Viral genomes were amplified and the near-full-length sequences were determined using next-generation sequencing (NGS) and Sanger sequencing. We focused on the HIV-1 subtype classification and identification of HIV recombinants. Twelve HIV-1 NFLGs were determined: ten were subtyped as pure HIV-1 subtype B and two recombinant strains as a common subtype CRF07_BC, and a novel subtype CRF43_02G recombined with CRF02_AG again, or a new CRF02_AG and subtype G recombinant. For the ten NFLGs determined by NGS, “the novel recombinant emerged at approximately 2003 and the other nine subtype B about 2004 or 2005”. This is the first report analyzing HIV-1 NFLG, including recombinants and clinical characteristics, by subtype among MSM in Korea. Our results provide novel insights for understanding the recombinants in the HIV-1 epidemic in Korea.https://doi.org/10.1038/s41598-021-82872-3 |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Sangmi Ryou Myeongsu Yoo Kisoon Kim Sangsoo Kim Sang Il Kim Youn Jeong Kim Dae Won Park Jun Yong Choi Hyo Youl Kim Jung Ho Kim Joon Young Song Shin-Woo Kim Hyun-Ha Chang Bo Youl Choi Mee-Kyung Kee |
spellingShingle |
Sangmi Ryou Myeongsu Yoo Kisoon Kim Sangsoo Kim Sang Il Kim Youn Jeong Kim Dae Won Park Jun Yong Choi Hyo Youl Kim Jung Ho Kim Joon Young Song Shin-Woo Kim Hyun-Ha Chang Bo Youl Choi Mee-Kyung Kee Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South Korea Scientific Reports |
author_facet |
Sangmi Ryou Myeongsu Yoo Kisoon Kim Sangsoo Kim Sang Il Kim Youn Jeong Kim Dae Won Park Jun Yong Choi Hyo Youl Kim Jung Ho Kim Joon Young Song Shin-Woo Kim Hyun-Ha Chang Bo Youl Choi Mee-Kyung Kee |
author_sort |
Sangmi Ryou |
title |
Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South Korea |
title_short |
Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South Korea |
title_full |
Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South Korea |
title_fullStr |
Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South Korea |
title_full_unstemmed |
Characterization of HIV-1 recombinant and subtype B near full-length genome among men who have sex with men in South Korea |
title_sort |
characterization of hiv-1 recombinant and subtype b near full-length genome among men who have sex with men in south korea |
publisher |
Nature Publishing Group |
series |
Scientific Reports |
issn |
2045-2322 |
publishDate |
2021-02-01 |
description |
Abstract In Korea, subtype B is the predominant variant of HIV-1, but full genome sequencing and analysis of its viral variants are lacking. We performed near full-length genome (NFLG) sequencing and phylogenetic and recombination analyses of fifty plasma samples from HIV-positive men who have sex with men (MSM) from a Korea HIV/AIDS cohort study. Viral genomes were amplified and the near-full-length sequences were determined using next-generation sequencing (NGS) and Sanger sequencing. We focused on the HIV-1 subtype classification and identification of HIV recombinants. Twelve HIV-1 NFLGs were determined: ten were subtyped as pure HIV-1 subtype B and two recombinant strains as a common subtype CRF07_BC, and a novel subtype CRF43_02G recombined with CRF02_AG again, or a new CRF02_AG and subtype G recombinant. For the ten NFLGs determined by NGS, “the novel recombinant emerged at approximately 2003 and the other nine subtype B about 2004 or 2005”. This is the first report analyzing HIV-1 NFLG, including recombinants and clinical characteristics, by subtype among MSM in Korea. Our results provide novel insights for understanding the recombinants in the HIV-1 epidemic in Korea. |
url |
https://doi.org/10.1038/s41598-021-82872-3 |
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