The University of Southampton
University of Southampton Institutional Repository

Distinct rates and patterns of spread of the major HIV-1 subtypes in Central and East Africa

Distinct rates and patterns of spread of the major HIV-1 subtypes in Central and East Africa
Distinct rates and patterns of spread of the major HIV-1 subtypes in Central and East Africa
Since the ignition of the HIV-1 group M pandemic in the beginning of the 20th century, group M lineages have spread heterogeneously throughout the world. Subtype C spread rapidly through sub-Saharan Africa and is currently the dominant HIV lineage worldwide. Yet the epidemiological and evolutionary circumstances that contributed to its epidemiological expansion remain poorly understood. Here, we analyse 346 novel pol sequences from the DRC to compare the evolutionary dynamics of the main HIV-1 lineages, subtypes A1, C and D. Our results place the origins of subtype C in the 1950s in Mbuji-Mayi, the mining city of southern DRC, while subtypes A1 and D emerged in the capital city of Kinshasa, and subtypes H and J in the less accessible port city of Matadi. Following a 15-year period of local transmission in southern DRC, we find that subtype C spread at least three-fold faster than other subtypes circulating in Central and East Africa. In conclusion, our results shed light on the origins of HIV-1 main lineages and suggest that socio-historical rather than evolutionary factors may have determined the epidemiological fate of subtype C in sub-Saharan Africa.
1553-7366
1-23
Faria, Nuno R.
cc78a30a-2b32-4b9b-9d46-5c7bd842da37
Vidal, Nicole
a4f06a4c-6886-408a-b8ec-01fef57f6677
Raghwani, Jayna
f23437cc-f770-42ae-923c-0abf27b6f4f4
Sigaloff, Kim C. E.
290b3fda-fb20-49db-92ba-89051951e895
Tatem, Andy J.
6c6de104-a5f9-46e0-bb93-a1a7c980513e
van de Vijver, David A. M.
e262bc23-9afd-4724-b516-2f072a1d9250
Pineda-Pena, Andrea-Clemencia
e7d9ffab-79c0-474f-a04d-38d3b151d21c
Rose, Rebecca
81d2397d-ba5d-4d17-90f0-1826d413a987
Wallis, Carole L.
7b996e34-ddb5-4cf8-97ab-f250621e9b1d
Ahuka-Mundeke, Steve
cdc67879-0c07-477e-b2af-15c59278d2cf
Muyembe-Tamfum, Jean-Jacques
492ff8ed-91ff-4c66-b718-8dc799b6ab9a
Muwonga, Jeremie
d90fc079-2ca3-492c-9205-81a91de8977a
Suchard, Marc A.
2b9ccbe3-f03a-492c-8225-8d52d95c6882
Rinke de Wit, T.F.
fddf7128-9015-43a4-a3e8-9c1f8fe2ab58
Hamers, Raph L.
e020cf08-8b12-4a53-b55e-fb06a50279e5
Ndembi, Nicaise
1bed5a22-2d1e-49b9-b3bd-32076603e5ae
Baele, Guy
fe4710f8-a426-43a7-8cad-e4c2187d9660
Peeters, Martine
0f3b0a37-37d6-4f0f-b856-10c70b65dcbc
Pybus, Oliver G.
5fa128e1-8eb8-4d38-b925-1d7869a07f99
Lemey, Philippe
207ba0de-f285-4098-9643-53646088c8cc
Dellicour, Simon
f026e785-71e3-4ef1-b87f-04b6864e6a3b
Faria, Nuno R.
cc78a30a-2b32-4b9b-9d46-5c7bd842da37
Vidal, Nicole
a4f06a4c-6886-408a-b8ec-01fef57f6677
Raghwani, Jayna
f23437cc-f770-42ae-923c-0abf27b6f4f4
Sigaloff, Kim C. E.
290b3fda-fb20-49db-92ba-89051951e895
Tatem, Andy J.
6c6de104-a5f9-46e0-bb93-a1a7c980513e
van de Vijver, David A. M.
e262bc23-9afd-4724-b516-2f072a1d9250
Pineda-Pena, Andrea-Clemencia
e7d9ffab-79c0-474f-a04d-38d3b151d21c
Rose, Rebecca
81d2397d-ba5d-4d17-90f0-1826d413a987
Wallis, Carole L.
7b996e34-ddb5-4cf8-97ab-f250621e9b1d
Ahuka-Mundeke, Steve
cdc67879-0c07-477e-b2af-15c59278d2cf
Muyembe-Tamfum, Jean-Jacques
492ff8ed-91ff-4c66-b718-8dc799b6ab9a
Muwonga, Jeremie
d90fc079-2ca3-492c-9205-81a91de8977a
Suchard, Marc A.
2b9ccbe3-f03a-492c-8225-8d52d95c6882
Rinke de Wit, T.F.
fddf7128-9015-43a4-a3e8-9c1f8fe2ab58
Hamers, Raph L.
e020cf08-8b12-4a53-b55e-fb06a50279e5
Ndembi, Nicaise
1bed5a22-2d1e-49b9-b3bd-32076603e5ae
Baele, Guy
fe4710f8-a426-43a7-8cad-e4c2187d9660
Peeters, Martine
0f3b0a37-37d6-4f0f-b856-10c70b65dcbc
Pybus, Oliver G.
5fa128e1-8eb8-4d38-b925-1d7869a07f99
Lemey, Philippe
207ba0de-f285-4098-9643-53646088c8cc
Dellicour, Simon
f026e785-71e3-4ef1-b87f-04b6864e6a3b

Faria, Nuno R., Vidal, Nicole, Raghwani, Jayna, Sigaloff, Kim C. E., Tatem, Andy J., van de Vijver, David A. M., Pineda-Pena, Andrea-Clemencia, Rose, Rebecca, Wallis, Carole L., Ahuka-Mundeke, Steve, Muyembe-Tamfum, Jean-Jacques, Muwonga, Jeremie, Suchard, Marc A., Rinke de Wit, T.F., Hamers, Raph L., Ndembi, Nicaise, Baele, Guy, Peeters, Martine, Pybus, Oliver G., Lemey, Philippe and Dellicour, Simon (2019) Distinct rates and patterns of spread of the major HIV-1 subtypes in Central and East Africa. PLOS Pathogens, 15 (12), 1-23, [1007976]. (doi:10.1371/journal.ppat.1007976).

Record type: Article

Abstract

Since the ignition of the HIV-1 group M pandemic in the beginning of the 20th century, group M lineages have spread heterogeneously throughout the world. Subtype C spread rapidly through sub-Saharan Africa and is currently the dominant HIV lineage worldwide. Yet the epidemiological and evolutionary circumstances that contributed to its epidemiological expansion remain poorly understood. Here, we analyse 346 novel pol sequences from the DRC to compare the evolutionary dynamics of the main HIV-1 lineages, subtypes A1, C and D. Our results place the origins of subtype C in the 1950s in Mbuji-Mayi, the mining city of southern DRC, while subtypes A1 and D emerged in the capital city of Kinshasa, and subtypes H and J in the less accessible port city of Matadi. Following a 15-year period of local transmission in southern DRC, we find that subtype C spread at least three-fold faster than other subtypes circulating in Central and East Africa. In conclusion, our results shed light on the origins of HIV-1 main lineages and suggest that socio-historical rather than evolutionary factors may have determined the epidemiological fate of subtype C in sub-Saharan Africa.

Text
Distinct rates and patterns of spread of the major HIV-1 subtypes in Central and East Africa - Version of Record
Available under License Creative Commons Attribution.
Download (2MB)

More information

Accepted/In Press date: 11 July 2019
e-pub ahead of print date: 6 December 2019
Published date: 6 December 2019

Identifiers

Local EPrints ID: 444255
URI: http://eprints.soton.ac.uk/id/eprint/444255
ISSN: 1553-7366
PURE UUID: bcbd3c52-8278-4db9-aa71-b567a932151b
ORCID for Andy J. Tatem: ORCID iD orcid.org/0000-0002-7270-941X

Catalogue record

Date deposited: 06 Oct 2020 20:13
Last modified: 17 Mar 2024 03:29

Export record

Altmetrics

Contributors

Author: Nuno R. Faria
Author: Nicole Vidal
Author: Jayna Raghwani
Author: Kim C. E. Sigaloff
Author: Andy J. Tatem ORCID iD
Author: David A. M. van de Vijver
Author: Andrea-Clemencia Pineda-Pena
Author: Rebecca Rose
Author: Carole L. Wallis
Author: Steve Ahuka-Mundeke
Author: Jean-Jacques Muyembe-Tamfum
Author: Jeremie Muwonga
Author: Marc A. Suchard
Author: T.F. Rinke de Wit
Author: Raph L. Hamers
Author: Nicaise Ndembi
Author: Guy Baele
Author: Martine Peeters
Author: Oliver G. Pybus
Author: Philippe Lemey
Author: Simon Dellicour

Download statistics

Downloads from ePrints over the past year. Other digital versions may also be available to download e.g. from the publisher's website.

View more statistics

Atom RSS 1.0 RSS 2.0

Contact ePrints Soton: eprints@soton.ac.uk

ePrints Soton supports OAI 2.0 with a base URL of http://eprints.soton.ac.uk/cgi/oai2

This repository has been built using EPrints software, developed at the University of Southampton, but available to everyone to use.

We use cookies to ensure that we give you the best experience on our website. If you continue without changing your settings, we will assume that you are happy to receive cookies on the University of Southampton website.

×