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Anopheles funestus genomic surveillance project

Started 2018

Mosquito
 

Introduction

Using whole-genome sequencing for enhanced monitoring and surveillance of the major African malaria vector Anopheles funestus.

Objectives & Coordination

Anopheles funestus is the second most important human malaria vector species, transmitting Plasmodium parasites in sub-Saharan Africa. This project aims to use whole-genome sequencing to survey genetic diversity, population structure and evolution of An. funestus, and to establish a foundation for ongoing genomic surveillance of An. funestus populations.

Status

Sequencing of mosquitoes from phase 1 of the project is now complete, and has generated whole genome sequence data for more than 800 An. funestus individuals from 15 countries, forming the basis for the first continent-wide An. funestus population genomic analysis. Through 2022, we will be exploring genetic variation and population structure on these phase 1 data. Please reach out to us if you would like to be involved in analysing these data and/or if you would like to participate in future sequencing studies on this important species.

New Partners

The project is currently open to new partnerships. If you are a vector biologist studying or monitoring An. funestus mosquitoes and are interested in partnering with the project, please email the project contact, or see the information about Applying for a Partner Study.

Sampling locations

Benin, Cameroon, Central African Republic, Congo, Congo, Gabon, Ghana, Kenya, Malawi, Mozambique, Nigeria, Senegal, Tanzania, Uganda, Zambia.

Data

We routinely release analysis-ready genomic data to project partners. In addition, we periodically release public access datasets. These data are made available via our cloud data repository, and are accompanied by analytical software to simplify data access.

In order to ensure regularly and timely data are available, data from this project will be made available as a series of data releases. Each data release will be given a version identifier (e.g., “Af1.1”) and will be associated with a date of public release.

To find out more about currently available data please visit the Vector Data User Guide.

 

Current

29 Apr 2024 Af1.3 Anopheles funestus data resource

193 whole genome sequences from Anopheles funestus mosquito samples collected in Tanzania.

29 Apr 2024 Af1.2: Anopheles funestus data resource

317 whole genome sequences from Anopheles funestus mosquito samples collected in Burkina Faso, Cameroon and Tanzania.

29 Apr 2024 Af1.1: Anopheles funestus data resource

2065 whole genome sequences from Anopheles funestus mosquito samples collected in Benin, Democratic Republic of Congo, Gabon, Ghana, Kenya, Malawi, Mali, Mozambique, Nigeria, South Africa, Tanzania, Uganda, and Zambia.

29 Apr 2024 Af1.0: Anopheles funestus data resource

656 whole genome sequences from Anopheles funestus mosquito samples collected in Benin, Cameroon, Central African Republic, Democratic Republic of Congo, Gabon, Ghana, Kenya, Malawi, Mozambique, Nigeria, Tanzania, Uganda, and Zambia.

Partner studies

We work with a number of researchers undertaking independent studies to address unique questions about malaria biology and disease in malaria endemic areas. Each study is different, but they all involve a genomic component whereby they partner with us to sequence parasite samples and share the population genetic data. Click a link below to learn more about their work.

Anopheles vector surveillance in Kenya (1354-VO-KE-DONNELLY)

Contributor Professor Martin Donnelly: Liverpool School of Tropical Medicine, United Kingdom.

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11 Oct 2023 Anopheles funestus vector surveillance in Ghana (1229-VO-GH-DADZIE)

Contributors: Samuel Dadzie Noguchi Memorial Institute for Medical Research, University of Ghana, Ghana Dziedzom K. de Souza Noguchi Memorial Institute for Medical Research, University of Ghana, Ghana

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11 Oct 2023 Anopheles funestus vector surveillance in Kenya (1232-VO-KE-OCHOMO)

Contributors: Eric Ochomo Kenya Medical Research Institute, Kenya Brigid Kemei Kenya Medical Research Institute, Kenya Bernard Abong’o Kenya Medical Research Institute, Kenya

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11 Oct 2023 Anopheles funestus vector surveillance in Mozambique (1235-VO-MZ-PAAIJMANS)

Contributors: Krijn Paaijmans Barcelona Institute for Global Health (ISGlobal) Mara Maquina Manhiça Health Research Centre (CISM), Mozambique

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11 Oct 2023 Anopheles funestus vector surveillance in Mozambique and the Democratic Republic of Congo (1240-VO-MULTI-KOEKEMOER)

Contributor: Lizette Koekemoer WITS Research Institute for Malaria, University of the Witwatersrand, South Africa

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11 Oct 2023 Anopheles funestus vector surveillance in Tanzania (1236-VO-TZ-OKUMU)

Contributors: Fredros Okumu Ifakara Health Institute, Tanzania Emmanuel Kaindoa Ifakara Health Institute, Tanzania Nicodem Govella Ifakara Health Institute, Tanzania Brian Tarimo Ifakara Health Institute, Tanzania

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11 Sep 2023 ANOSPP screening of Anopheles species and Plasmodium presence in malaria vectors in Nigeria (1315-VO-NG-OMITOLA)

Contributor: Olaitan Omitola Federal University of Agriculture Abeokuta, Nigeria

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11 Sep 2023 ANOSPP screening of Anopheles species and Plasmodium presence in malaria vectors in Uganda (1326-VO-UG-KAYONDO)

Contributor: Jonathan Kayondo Uganda Virus Research Institute, Uganda

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11 Sep 2023 ANOSPP screening of Anopheles species and Plasmodium presence in malaria vectors in West-Central Africa (1230-VO-MULTI-AYALA)

Contributors: Diego Ayala MIVEGEC, IRD, CNRS, Univ. Montpellier, Montpellier, France Sandrine Nsango Centre Pasteur du Cameroun, Cameroon Jean Akiana Laboratoire National de santé Publique, Democratic Republic of Congo Claire Sangba-Kembi Institut Pasteur de…

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11 Sep 2023 LLIN Evaluation in Uganda Project (LLINEUP) (1288-VO-UG-DONNELLY)

LLINEUP trial is a large-scale trial of next generation PBO bed-nets covering 104 health sub-districts in Uganda – approximately half of the area of the country. The primary outcome of the trial is…

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8 Sep 2023 PAMCA Anopheles genomics programme - Seasonality and impact of vector control interventions on population genetics of Anopheles funestus and Anopheles gambiae malaria vectors in Zambia (1273-VO-ZM-MULEBA)

We seek to address a scientific question on effects of season and vector control interventions on population genetics of Anopheles funestus and Anopheles gambiae malaria vectors in Zambia. Specimens will be collected from…

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11 Oct 2023 Population genomics of Anopheles funestus (1231-VO-MULTI-WONDJI)

Contributors: Charles Wondji London School of Hygiene and Tropical Medicine (LSHTM), UK Helen Irving London School of Hygiene and Tropical Medicine (LSHTM), UK

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Publications