Mapping of HIV-1C Transmission Networks Reveals Extensive Spread of Viral Lineages Across Villages in Botswana Treatment-as-Prevention Trial.
Botswana
HIV-1 clusters
transmission network
viral lineages
Journal
The Journal of infectious diseases
ISSN: 1537-6613
Titre abrégé: J Infect Dis
Pays: United States
ID NLM: 0413675
Informations de publication
Date de publication:
15 11 2020
15 11 2020
Historique:
received:
24
12
2019
accepted:
26
05
2020
pubmed:
4
6
2020
medline:
12
3
2021
entrez:
4
6
2020
Statut:
ppublish
Résumé
Phylogenetic mapping of HIV-1 lineages circulating across defined geographical locations is promising for better understanding HIV transmission networks to design optimal prevention interventions. We obtained near full-length HIV-1 genome sequences from people living with HIV (PLWH), including participants on antiretroviral treatment in the Botswana Combination Prevention Project, conducted in 30 Botswana communities in 2013-2018. Phylogenetic relationships among viral sequences were estimated by maximum likelihood. We obtained 6078 near full-length HIV-1C genome sequences from 6075 PLWH. We identified 984 phylogenetically distinct HIV-1 lineages (molecular HIV clusters) circulating in Botswana by mid-2018, with 2-27 members per cluster. Of these, dyads accounted for 62%, approximately 32% (n = 316) were found in single communities, and 68% (n = 668) were spread across multiple communities. Men in clusters were approximately 3 years older than women (median age 42 years, vs 39 years; P < .0001). In 65% of clusters, men were older than women, while in 35% of clusters women were older than men. The majority of identified viral lineages were spread across multiple communities. A large number of circulating phylogenetically distinct HIV-1C lineages (molecular HIV clusters) suggests highly diversified HIV transmission networks across Botswana communities by 2018.
Sections du résumé
BACKGROUND
Phylogenetic mapping of HIV-1 lineages circulating across defined geographical locations is promising for better understanding HIV transmission networks to design optimal prevention interventions.
METHODS
We obtained near full-length HIV-1 genome sequences from people living with HIV (PLWH), including participants on antiretroviral treatment in the Botswana Combination Prevention Project, conducted in 30 Botswana communities in 2013-2018. Phylogenetic relationships among viral sequences were estimated by maximum likelihood.
RESULTS
We obtained 6078 near full-length HIV-1C genome sequences from 6075 PLWH. We identified 984 phylogenetically distinct HIV-1 lineages (molecular HIV clusters) circulating in Botswana by mid-2018, with 2-27 members per cluster. Of these, dyads accounted for 62%, approximately 32% (n = 316) were found in single communities, and 68% (n = 668) were spread across multiple communities. Men in clusters were approximately 3 years older than women (median age 42 years, vs 39 years; P < .0001). In 65% of clusters, men were older than women, while in 35% of clusters women were older than men. The majority of identified viral lineages were spread across multiple communities.
CONCLUSIONS
A large number of circulating phylogenetically distinct HIV-1C lineages (molecular HIV clusters) suggests highly diversified HIV transmission networks across Botswana communities by 2018.
Identifiants
pubmed: 32492145
pii: 5850911
doi: 10.1093/infdis/jiaa276
pmc: PMC7936922
doi:
Substances chimiques
Antirheumatic Agents
0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, P.H.S.
Langues
eng
Sous-ensembles de citation
IM
Pagination
1670-1680Subventions
Organisme : Bill & Melinda Gates Foundation
ID : OPP1175094
Pays : United States
Organisme : NIAID NIH HHS
ID : R01 AI047067
Pays : United States
Organisme : FIC NIH HHS
ID : D43 TW009610
Pays : United States
Organisme : NIH HHS
Pays : United States
Organisme : CGH CDC HHS
ID : U2G GH001911
Pays : United States
Organisme : NIAID NIH HHS
ID : RC4 AI092715
Pays : United States
Organisme : Medical Research Council
ID : MC_EX_MR/L016273/1
Pays : United Kingdom
Organisme : Medical Research Council
ID : MC_UU_00027/1
Pays : United Kingdom
Organisme : CGH CDC HHS
ID : U01 GH000447
Pays : United States
Organisme : NIAID NIH HHS
ID : R37 AI051164
Pays : United States
Organisme : Bill & Melinda Gates Foundation
ID : OPP1084362
Pays : United States
Organisme : NIAID NIH HHS
ID : R01 AI083036
Pays : United States
Organisme : PEPFAR
Pays : United States
Investigateurs
Lucie Abeler-Dörner
(L)
David Bonsall
(D)
Christophe Fraser
(C)
Tanya Golubchik
(T)
Helen Ayles
(H)
Rory Bowden
(R)
Vincent Calvez
(V)
Sarah Fidler
(S)
Kate Grabowski
(K)
Joseph Kagaayi
(J)
Richard Hayes
(R)
Janet Seeley
(J)
Joshua Herbeck
(J)
Jairam Lingappa
(J)
Pontiano Kaleebu
(P)
Deogratius Ssemwanga
(D)
Deenan Pillay
(D)
Frank Tanser
(F)
Thomas Quinn
(T)
Andrew Rambaut
(A)
Andrew Leigh-Brown
(A)
Oliver Ratmann
(O)
Maria Wawer
(M)
Myron Cohen
(M)
Ann Dennis
(A)
Tulio D'Oliveira
(T)
Dan Frampton
(D)
Anne Hoppe
(A)
Paul Kellam
(P)
Cissy Kityo
(C)
Nick Paton
(N)
Informations de copyright
© The Author(s) 2020. Published by Oxford University Press for the Infectious Diseases Society of America. All rights reserved. For permissions, e-mail: journals.permissions@oup.com.
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