TY - JOUR
T1 - Mapping of HIV-1C transmission networks reveals extensive spread of viral lineages across villages in Botswana treatment-as-prevention trial
AU - PANGEA consortium
AU - Novitsky, Vlad
AU - Zahralban-Steele, Melissa
AU - Moyo, Sikhulile
AU - Nkhisang, Tapiwa
AU - Maruapula, Dorcas
AU - McLane, Mary Fran
AU - Leidner, Jean
AU - Bennett, Kara
AU - Wirth, Kathleen E.
AU - Gaolathe, Tendani
AU - Kadima, Etienne
AU - Chakalisa, Unoda
AU - Holme, Molly Pretorius
AU - Lockman, Shahin
AU - Mmalane, Mompati
AU - Makhema, Joseph
AU - Gaseitsiwe, Simani
AU - DeGruttola, Victor
AU - Essex, M.
AU - Abeler-Dörner, Lucie
AU - Bonsall, David
AU - Fraser, Christophe
AU - Golubchik, Tanya
AU - Ayles, Helen
AU - Bowden, Rory
AU - Calvez, Vincent
AU - Fidler, Sarah
AU - Grabowski, Kate
AU - Kagaayi, Joseph
AU - Hayes, Richard
AU - Seeley, Janet
AU - Herbeck, Joshua
AU - Lingappa, Jairam
AU - Kaleebu, Pontiano
AU - Ssemwanga, Deogratius
AU - Pillay, Deenan
AU - Tanser, Frank
AU - Quinn, Thomas
AU - Rambaut, Andrew
AU - Leigh-Brown, Andrew
AU - Ratmann, Oliver
AU - Wawer, Maria
AU - Cohen, Myron
AU - Dennis, Ann
AU - D'Oliveira, Tulio
AU - Frampton, Dan
AU - Hoppe, Anne
AU - Kellam, Paul
AU - Kityo, Cissy
AU - Paton, Nick
N1 - Publisher Copyright:
© The Author(s) 2020. Published by Oxford University Press for the Infectious Diseases Society of America. All rights reserved. For permissions, e-mail: [email protected].
PY - 2020/11/15
Y1 - 2020/11/15
N2 - 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.
AB - 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.
KW - Botswana
KW - HIV-1 clusters
KW - Transmission network
KW - Viral lineages
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U2 - 10.1093/infdis/jiaa276
DO - 10.1093/infdis/jiaa276
M3 - Article
C2 - 32492145
AN - SCOPUS:85092945207
SN - 0022-1899
VL - 222
SP - 1670
EP - 1680
JO - Journal of Infectious Diseases
JF - Journal of Infectious Diseases
IS - 10
ER -