TY - JOUR
T1 - PANGEA-HIV 2
T2 - Phylogenetics and Networks for Generalised Epidemics in Africa
AU - Abeler-Dörner, Lucie
AU - Grabowski, Mary K.
AU - Rambaut, Andrew
AU - Pillay, Deenan
AU - Fraser, Christophe
N1 - Funding Information:
We thank all members of the PANGEA consortium for making this project possible, Dr William Probert, Dr Chris Wymant, and Dr Tanya Golubchik, and the members of the PANGEA 2 Steering Committee for critical reading of the manuscript, and Larisa Gavrila for help with the references. PANGEA is funded by the Bill & Melinda Gates Foundation (consecutive grants OPP1084362 and OPP1175094).
Funding Information:
We thank all members of the PANGEA consortium for making this project possible, Dr William Probert, Dr Chris Wymant, and Dr Tanya Golubchik, and the members of the PANGEA 2 Steering Committee for critical reading of the manuscript, and Larisa Gavrila for help with the references. PANGEA is funded by the Bill & Melinda Gates Foundation (consecutive grants OPP1084362 and OPP1175094). Members of the PANGEA consortium are listed below: Helen Ayles, Clinical Research Department, Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, London, UK, and Zambart, University of Zambia, Lusaka, Zambia; David Bonsall, Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, University of Oxford, Oxford, UK; Rory Bowden, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK; Vincent Calvez, Institut Camille Jordan, Université de Lyon, Université Claude Bernard,
Publisher Copyright:
© 2019 The Author(s). Published by Wolters Kluwer Health, Inc.
PY - 2019/5/1
Y1 - 2019/5/1
N2 - Purpose of reviewThe HIV epidemic in sub-Saharan Africa is far from being under control and the ambitious UNAIDS targets are unlikely to be met by 2020 as declines in per-capita incidence being largely offset by demographic trends. There is an increasing number of proven and specific HIV prevention tools, but little consensus on how best to deploy them.Recent findingsTraditionally, phylogenetics has been used in HIV research to reconstruct the history of the epidemic and date zoonotic infections, whereas more recent publications focus on HIV diversity and drug resistance. However, it is also the most powerful method of source attribution available for the study of HIV transmission. The PANGEA (Phylogenetics And Networks for Generalized Epidemics in Africa) consortium has generated over 18 000 NGS HIV sequences from five countries in sub-Saharan Africa. Using phylogenetic methods, we will identify characteristics of individuals or groups, which are most likely to be at risk of infection or at risk of infecting others.SummaryCombining phylogenetics, phylodynamics and epidemiology will allow PANGEA to highlight where prevention efforts should be focussed to reduce the HIV epidemic most effectively. To maximise the public health benefit of the data, PANGEA offers accreditation to external researchers, allowing them to access the data and join the consortium. We also welcome submissions of other HIV sequences from sub-Saharan Africa to the database.
AB - Purpose of reviewThe HIV epidemic in sub-Saharan Africa is far from being under control and the ambitious UNAIDS targets are unlikely to be met by 2020 as declines in per-capita incidence being largely offset by demographic trends. There is an increasing number of proven and specific HIV prevention tools, but little consensus on how best to deploy them.Recent findingsTraditionally, phylogenetics has been used in HIV research to reconstruct the history of the epidemic and date zoonotic infections, whereas more recent publications focus on HIV diversity and drug resistance. However, it is also the most powerful method of source attribution available for the study of HIV transmission. The PANGEA (Phylogenetics And Networks for Generalized Epidemics in Africa) consortium has generated over 18 000 NGS HIV sequences from five countries in sub-Saharan Africa. Using phylogenetic methods, we will identify characteristics of individuals or groups, which are most likely to be at risk of infection or at risk of infecting others.SummaryCombining phylogenetics, phylodynamics and epidemiology will allow PANGEA to highlight where prevention efforts should be focussed to reduce the HIV epidemic most effectively. To maximise the public health benefit of the data, PANGEA offers accreditation to external researchers, allowing them to access the data and join the consortium. We also welcome submissions of other HIV sequences from sub-Saharan Africa to the database.
KW - HIV
KW - Phylogenetics And Networks for Generalized Epidemics in Africa
KW - phylogenetics
KW - sub-Saharan Africa
KW - transmission dynamics
UR - http://www.scopus.com/inward/record.url?scp=85064239512&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85064239512&partnerID=8YFLogxK
U2 - 10.1097/COH.0000000000000542
DO - 10.1097/COH.0000000000000542
M3 - Review article
C2 - 30946141
AN - SCOPUS:85064239512
SN - 1746-630X
VL - 14
SP - 173
EP - 180
JO - Current opinion in HIV and AIDS
JF - Current opinion in HIV and AIDS
IS - 3
ER -