Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden

Abstract A temporal increase in non-B subtypes has earlier been described in Sweden by us and we hypothesized that this increased viral heterogeneity may become a hotspot for the development of more complex and unique recombinant forms (URFs) if the epidemics converge. In the present study, we perfo...

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Autores principales:	Ujjwal Neogi, Abu Bakar Siddik, Prabhav Kalaghatgi, Magnus Gisslén, Göran Bratt, Gaetano Marrone, Anders Sönnerborg
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/7d8b27ccc76c472d802338fbc9c815f2
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spelling	oai:doaj.org-article:7d8b27ccc76c472d802338fbc9c815f22021-12-02T11:40:51ZRecent increased identification and transmission of HIV-1 unique recombinant forms in Sweden10.1038/s41598-017-06860-22045-2322https://doaj.org/article/7d8b27ccc76c472d802338fbc9c815f22017-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-06860-2https://doaj.org/toc/2045-2322Abstract A temporal increase in non-B subtypes has earlier been described in Sweden by us and we hypothesized that this increased viral heterogeneity may become a hotspot for the development of more complex and unique recombinant forms (URFs) if the epidemics converge. In the present study, we performed subtyping using four automated tools and phylogenetic analysis by RAxML of pol gene sequences (n = 5246) and HIV-1 near full-length genome (HIV-NFLG) sequences (n = 104). A CD4+ T-cell decline trajectory algorithm was used to estimate time of HIV infection. Transmission clusters were identified using the family-joining method. The analysis of HIV-NFLG and pol gene described 10.6% (11/104) and 2.6% (137/5246) of the strains as URFs, respectively. An increasing trend of URFs was observed in recent years by both approaches (p = 0·0082; p < 0·0001). Transmission cluster analysis using the pol gene of all URFs identified 14 clusters with two to eight sequences. Larger transmission clusters of URFs (BF1 and 01B) were observed among MSM who mostly were sero-diagnosed in recent time. Understanding the increased appearance and transmission of URFs in recent years could have importance for public health interventions and the use of HIV-NFLG would provide better statistical support for such assessments.Ujjwal NeogiAbu Bakar SiddikPrabhav KalaghatgiMagnus GisslénGöran BrattGaetano MarroneAnders SönnerborgNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-9 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ujjwal Neogi Abu Bakar Siddik Prabhav Kalaghatgi Magnus Gisslén Göran Bratt Gaetano Marrone Anders Sönnerborg Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden
description	Abstract A temporal increase in non-B subtypes has earlier been described in Sweden by us and we hypothesized that this increased viral heterogeneity may become a hotspot for the development of more complex and unique recombinant forms (URFs) if the epidemics converge. In the present study, we performed subtyping using four automated tools and phylogenetic analysis by RAxML of pol gene sequences (n = 5246) and HIV-1 near full-length genome (HIV-NFLG) sequences (n = 104). A CD4+ T-cell decline trajectory algorithm was used to estimate time of HIV infection. Transmission clusters were identified using the family-joining method. The analysis of HIV-NFLG and pol gene described 10.6% (11/104) and 2.6% (137/5246) of the strains as URFs, respectively. An increasing trend of URFs was observed in recent years by both approaches (p = 0·0082; p < 0·0001). Transmission cluster analysis using the pol gene of all URFs identified 14 clusters with two to eight sequences. Larger transmission clusters of URFs (BF1 and 01B) were observed among MSM who mostly were sero-diagnosed in recent time. Understanding the increased appearance and transmission of URFs in recent years could have importance for public health interventions and the use of HIV-NFLG would provide better statistical support for such assessments.
format	article
author	Ujjwal Neogi Abu Bakar Siddik Prabhav Kalaghatgi Magnus Gisslén Göran Bratt Gaetano Marrone Anders Sönnerborg
author_facet	Ujjwal Neogi Abu Bakar Siddik Prabhav Kalaghatgi Magnus Gisslén Göran Bratt Gaetano Marrone Anders Sönnerborg
author_sort	Ujjwal Neogi
title	Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden
title_short	Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden
title_full	Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden
title_fullStr	Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden
title_full_unstemmed	Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden
title_sort	recent increased identification and transmission of hiv-1 unique recombinant forms in sweden
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/7d8b27ccc76c472d802338fbc9c815f2
work_keys_str_mv	AT ujjwalneogi recentincreasedidentificationandtransmissionofhiv1uniquerecombinantformsinsweden AT abubakarsiddik recentincreasedidentificationandtransmissionofhiv1uniquerecombinantformsinsweden AT prabhavkalaghatgi recentincreasedidentificationandtransmissionofhiv1uniquerecombinantformsinsweden AT magnusgisslen recentincreasedidentificationandtransmissionofhiv1uniquerecombinantformsinsweden AT goranbratt recentincreasedidentificationandtransmissionofhiv1uniquerecombinantformsinsweden AT gaetanomarrone recentincreasedidentificationandtransmissionofhiv1uniquerecombinantformsinsweden AT anderssonnerborg recentincreasedidentificationandtransmissionofhiv1uniquerecombinantformsinsweden
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Recent increased identification and transmission of HIV-1 unique recombinant forms in Sweden

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