ArticleScience (New York, N.Y.)2022
The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance.
Open access · greenAbstract read
In one paragraph
Article in Science (New York, N.Y.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 116 papers, 2 of them syntheses that pooled it.
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116citing papers in PubMed, 2 pooled it
15.9field-weighted citation impact, top 1% of its field
What it found
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Who cites it
116 citing papers in PubMed, 2 syntheses or guidelines pooled it, 169 citations in OpenAlex.
- Identifying genomic surveillance gaps in Africa for the global public health response to West Nile virus: a systematic review.The Lancet. Microbe · 2025Pooled it
- Technological Barriers to Routine Genomic Surveillance for Vaccine Development Against SARS-CoV-2 in Africa: A Systematic Review.Influenza and other respiratory viruses · 2024Pooled it
- Human wastewater contamination drives the emergence of multidrug-resistant bacteria in the Galápagos marine ecosystem.Nature communications · 2026Article
- Global disparities in COVID-19 vaccine coverage associated with trajectories of SARS-CoV-2 adaptation.BMC infectious diseases · 2026Article
- The need to strengthen laboratory leadership, systems, and networks to enhance outbreak detection and resilience in Africa: proceedings of a regional workshop.BMC proceedings · 2026Article
- Identifying viral infections through metagenomic Next Generation Sequencing of undiagnosed respiratory fevers in Madagascar (2014-2019).BMC infectious diseases · 2026Article
- Genomic Surveillance of SARS-CoV-2 in Senegal (2020-2024): Variant Turnover, Omicron Introductions, and Interregional Spread.Influenza and other respiratory viruses · 2026Article
- 2026 Bundibugyo virus outbreak: the role of genomics inMicrobial genomics · 2026Article
- In Silico Design and Computational Characterization of Novel Chimeric Multiepitope Antigens for Mpox Serosurveillance: An Immunoinformatics Approach.Health science reports · 2026Article
- Early Detection Intervals for Evaluating Event-Based Surveillance System: Reference Dataset Development Study.JMIR public health and surveillance · 2026Article
- Global approaches to infectious disease surveillance and modeling.Nature medicine · 2026Review
- Article
- Strengthening microbial genomics capacity in Africa for epidemic preparedness: key lessons from the AFROSCREEN programme.Journal of global health · 2026Article
- Two years of SARS-CoV-2 genomic surveillance capacity development in Guinea.Scientific reports · 2026Article
- Optimizing global genomic surveillance for early detection of emerging SARS-CoV-2 variants.Nature communications · 2026Article
- Africa's Critical Role in Shaping and Implementing the Pandemic Agreement's PABS Annex in an Era of Fragmentation.Globalization and health · 2026Article
- Inequities and global declines in SARS-CoV-2 genomic data availability hinder response to emerging variants.Npj viruses · 2026Review
- The genomic diversity of SARS-CoV-2 Omicron lineages collected during routine sentinel surveillance in Tanzania between November 2022 and July 2023.BMC genomics · 2026Article
- Harnessing the power of virtual reality technology to enhance public health genomics skills in Africa.Nature communications · 2026Review
- Global solidarity in genomic surveillance improves early detection of acute respiratory virus threats.Nature communications · 2026Article
56 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
402 authors at 20 institutions in 65 countries.
Houriiyah Tegally *Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.ORCID 0000-0002-7102-8540
James E SanCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.ORCID 0000-0002-5736-664X
Matthew CottenMRC/UVRI and LSHTM Uganda Research Unit, Entebbe, Uganda.ORCID 0000-0002-3361-3351
Monika MoirCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.ORCID 0000-0003-1095-1910
Bryan TegomohThe Biotechnology Centre of the University of Yaoundé I, Yaoundé, Cameroon.
Gerald MboowaInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.ORCID 0000-0001-8445-9414
Darren P MartinInstitute of Infectious Diseases and Molecular Medicine, Department of Integrative Biomedical Sciences, Computational Biology Division, University of Cape Town, Cape Town, South Africa.
Cheryl BaxterCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.ORCID 0000-0002-6033-7655
Arnold W LambisiaKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0001-5312-0960
Amadou DialloInstitut Pasteur de Dakar, Dakar, Senegal.ORCID 0000-0002-8584-9972
Daniel G AmoakoNational Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.ORCID 0000-0003-3551-3458
Moussa M DiagneInstitut Pasteur de Dakar, Dakar, Senegal.
Abay SisayDepartment of Medical Laboratory Sciences, College of Health Sciences, Addis Ababa University, Addis Ababa, Ethiopia.ORCID 0000-0002-6646-1868
Abdel-Rahman N ZekriCancer Biology Department, Virology and Immunology Unit, National Cancer Institute, Cairo University, Cairo, Egypt.ORCID 0000-0003-3939-0416
Abdou Salam GueyeWorld Health Organization, Africa Region, Brazzaville, Republic of the Congo.
Abdoul K SangareCentre d'Infectiologie Charles Mérieux-Mali (CICM-Mali), Bamako, Mali.
Abdoul-Salam OuedraogoBacteriology and Virology Department Souro Sanou University Hospital, Bobo-Dioulasso, Burkina Faso.
Abdourahmane SowWest African Health Organisation, Bobo-Dioulasso, Burkina Faso.
Abdualmoniem O MusaFaculty of Medicine and Health Sciences, Kassala University, Kassala City, Sudan.ORCID 0000-0003-3840-9277
Abdul K SesayMRC Unit The Gambia at LSHTM, Fajara, Gambia.
Abe G AbiasNational Public Health Laboratory, Ministry of Health, Juba, Republic of South Sudan.
Adam I ElzagheidLibyan Biotechnology Research Center, Tripoli, Libya.ORCID 0000-0002-7086-5937
Adamou LagareCenter for Medical and Sanitary Research (CERMES), Niamey, Niger.
Adedotun-Sulaiman KemiThe Nigerian Institute of Medical Research, Yaba, Lagos, Nigeria.
Aden Elmi AbarLaboratoire de la Caisse Nationale de Sécurité Sociale, Djibouti, Republic of Djibouti.
Adeniji A JohnsonDepartment of Virology, College of Medicine, University of Ibadan, Ibadan, Nigeria.
Adeola FowotadeMedical Microbiology and Parasitology Department, College of Medicine, University of Ibadan, Ibadan, Nigeria.
Adeyemi O OluwapelumiDepartment of Medical Microbiology and Parasitology, Faculty of Basic Clinical Sciences, College of Health Sciences, University of Ilorin, Ilorin, Kwara State, Nigeria.ORCID 0000-0002-0848-5917
Adrienne A AmuriPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.ORCID 0000-0002-5516-0779
Agnes JuruNational Microbiology Reference Laboratory, Harare, Zimbabwe.
Ahmed KandeilCenter of Scientific Excellence for Influenza Viruses, National Research Centre (NRC), Cairo, Egypt.ORCID 0000-0003-3253-6961
Ahmed MostafaCenter of Scientific Excellence for Influenza Viruses, National Research Centre (NRC), Cairo, Egypt.ORCID 0000-0002-2878-5714
Ahmed RebaiLaboratory of Molecular and Cellular Screening Processes, Centre of Biotechnology of Sfax, University of Sfax, Sfax, Tunisia.ORCID 0000-0002-8954-8683
Ahmed SayedGenomics and Epigenomics Program, Research Department CCHE57357, Cairo, Egypt.
Akano KazeemAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Aladje BaldeLaboratório de Biologia Molecular Jean Piaget, Bissau, Guinea-Bissau.
Alan ChristoffelsInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.ORCID 0000-0002-0420-2916
Alexander J TrotterQuadram Institute Bioscience, Norwich, UK.ORCID 0000-0001-5612-5310
Allan CampbellCentral Public Health Reference Laboratories, Freetown, Sierra Leone.ORCID 0000-0002-9178-1556
Alpha K KeitaCentre de Recherche et de Formation en Infectiologie de Guinée (CERFIG), Université de Conakry, Conakry, Guinea.
Amadou KoneUniversity Clinical Research Center (UCRC), University of Sciences, Techniques and Technology of Bamako, Bamako, Mali.
Amal BouzidLaboratory of Molecular and Cellular Screening Processes, Centre of Biotechnology of Sfax, University of Sfax, Sfax, Tunisia.
Amal SouissiLaboratory of Molecular and Cellular Screening Processes, Centre of Biotechnology of Sfax, University of Sfax, Sfax, Tunisia.ORCID 0000-0003-3838-1876
Ambrose AgweyuKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0001-8760-1279
Amel NaguibCentral Public Health Laboratories (CPHL), Cairo, Egypt.
Ana V GutierrezQuadram Institute Bioscience, Norwich, UK.ORCID 0000-0001-7269-701X
Anatole NkeshimanaNational Institute of Public Health, Bujumbura, Burundi.
Andrew J PageQuadram Institute Bioscience, Norwich, UK.ORCID 0000-0001-6919-6062
Anges YadouletonLaboratoire des Fièvres Hémorragiques Virales du Benin, Cotonou, Benin.ORCID 0000-0001-8346-7439
Anika VinzeInfectious Disease and Microbiome Program, Broad Institute of Harvard and MIT, Cambridge, MA, USA.
Anise N HappiAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Anissa ChouikhaLaboratory of Clinical Virology, WHO Reference Laboratory for Poliomyelitis and Measles in the Eastern Mediterranean Region, Pasteur Institute of Tunis, University Tunis El Manar (UTM), Tunis 1002, Tunisia.ORCID 0000-0001-5616-0204
Arash IranzadehInstitute of Infectious Diseases and Molecular Medicine, Department of Integrative Biomedical Sciences, Computational Biology Division, University of Cape Town, Cape Town, South Africa.
Arisha MaharajCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.
Armel L Batchi-BouyouFondation Congolaise pour la Recherche Médicale, Brazzaville, Republic of the Congo.
Arshad IsmailNational Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.ORCID 0000-0003-4672-5915
Augustina A SylverkenKwame Nkrumah University of Science and Technology, Department of Theoretical and Applied Biology, Kumasi, Ghana.ORCID 0000-0002-7691-914X
Augustine GobaViral Haemorrhagic Fever Laboratory, Kenema Government Hospital, Kenema, Sierra Leone.
Ayoade FemiAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0002-6599-3109
Ayotunde E SijuwolaAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Baba MarycelinDepartment of Immunology, University of Maiduguri Teaching Hospital, P.M.B. 1414, Maiduguri, Nigeria.ORCID 0000-0002-1004-1717
Babatunde L SalakoThe Nigerian Institute of Medical Research, Yaba, Lagos, Nigeria.ORCID 0000-0002-0963-7302
Bamidele S OderindeDepartment of Immunology, University of Maiduguri Teaching Hospital, P.M.B. 1414, Maiduguri, Nigeria.
Bankole BolajokoAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Bassirou DiarraUniversity Clinical Research Center (UCRC), University of Sciences, Techniques and Technology of Bamako, Bamako, Mali.ORCID 0000-0002-1795-9379
Belinda L HerringWorld Health Organization, Africa Region, Brazzaville, Republic of the Congo.
Benjamin TsofaKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0003-1000-1771
Bernard Lekana-DoukiCentre Interdisciplinaires de Recherches Medicales de Franceville (CIRMF), Franceville, Gabon.ORCID 0000-0002-9417-1358
Bernard MvulaNational HIV Reference Laboratory, Community Health Sciences Unit, Ministry of Health, Lilongwe, Malawi.
Berthe-Marie Njanpop-LafourcadeWorld Health Organization, Africa Region, Brazzaville, Republic of the Congo.
Blessing T MaronderaAfrican Society for Laboratory Medicine, Addis Ababa, Ethiopia.
Bouh Abdi KhairehNational Medical and Molecular Biology Laboratory, Ministry of Health, Djibouti, Republic of Djibouti.
Bourema KouribaCentre d'Infectiologie Charles Mérieux-Mali (CICM-Mali), Bamako, Mali.ORCID 0000-0002-3419-5972
Bright AduNoguchi Memorial Institute for Medical Research, University of Ghana, Legon, Ghana.ORCID 0000-0002-3622-2137
Brigitte PoolSeychelles Public Health Laboratory, Public Health Authority, Ministry of Health Seychelles, Victoria, Seychelles.
Bronwyn McInnisCancer Biology Department, Virology and Immunology Unit, National Cancer Institute, Cairo University, Cairo, Egypt.ORCID 0000-0003-0082-968X
Cara BrookDepartment of Ecology and Evolution, University of Chicago, Chicago, IL, USA.ORCID 0000-0003-4276-073X
Carolyn WilliamsonDivision of Medical Virology, Wellcome Centre for Infectious Diseases in Africa, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, Cape Town, South Africa.ORCID 0000-0003-0125-1226
Cassien NduwimanaNational Institute of Public Health, Bujumbura, Burundi.
Catherine AnscombeMalawi-Liverpool-Wellcome Trust Clinical Research Programme, Blantyre, Malawi.
Catherine B PrattUniversity of Nebraska Medical Center (UNMC), Omaha, NE, USA.ORCID 0000-0001-6132-2570
Cathrine ScheepersNational Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.ORCID 0000-0002-1683-0282
Chantal G Akoua-KoffiCHU de Bouaké, Laboratoire/Unité de Diagnostic des Virus des Fièvres Hémorragiques et Virus Émergents, Bouaké, Côte d'Ivoire.
Charles N AgotiKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.
Chastel M MapanguyFondation Congolaise pour la Recherche Médicale, Brazzaville, Republic of the Congo.
Cheikh LoucoubarInstitut Pasteur de Dakar, Dakar, Senegal.
Chika K OnwuamahCentre for Human Virology and Genomics, Nigerian Institute of Medical Research, Yaba, Lagos, Nigeria.ORCID 0000-0002-5111-1822
Chikwe IhekweazuNigeria Centre for Disease Control and Prevention, Abuja, Nigeria.
Christian N MalakaLaboratoire des Arbovirus, Fièvres Hémorragiques virales, Virus Emergents et Zoonoses, Institut Pasteur de Bangui, Bangui, Central African Republic.ORCID 0000-0003-4496-2212
Christophe PeyrefitteInstitut Pasteur de Dakar, Dakar, Senegal.
Chukwa GraceAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0001-5273-045X
Chukwuma E OmoruyiMedical Microbiology and Parasitology Department, College of Medicine, University of Ibadan, Ibadan, Nigeria.
Clotaire D RafaïLe Laboratoire National de Biologie Clinique et de Santé Publique (LNBCSP), Bangui, Central African Republic.
Collins M Morang'aWest African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Accra, Ghana.ORCID 0000-0002-6988-150X
Cyril EramehInstitute of Lassa Fever Research and Control, Irrua Specialist Teaching Hospital, Irrua, Nigeria.ORCID 0000-0001-7783-2495
Daniel B LuleMRC/UVRI and LSHTM Uganda Research Unit, Entebbe, Uganda.ORCID 0000-0002-5616-515X
Daniel J BridgesPATH, Lusaka, Zambia.ORCID 0000-0002-9424-713X
Daniel Mukadi-BamulekaPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.
Danny ParkInfectious Disease and Microbiome Program, Broad Institute of Harvard and MIT, Cambridge, MA, USA.ORCID 0000-0001-7226-7781
David A RasmussenDepartment of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, USA.ORCID 0000-0001-9457-7561
David BakerQuadram Institute Bioscience, Norwich, UK.
David J NokesKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0001-5426-1984
Deogratius SsemwangaMRC/UVRI and LSHTM Uganda Research Unit, Entebbe, Uganda.ORCID 0000-0001-9675-4234
Derek TshiabuilaKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.ORCID 0000-0001-5221-2126
Dominic S Y AmuzuWest African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Accra, Ghana.ORCID 0000-0002-8920-0708
Dominique GoedhalsPathCare Vermaak, Pretoria, South Africa and Division of Virology, University of the Free State, Bloemfontein, South Africa.
Donald S GrantViral Haemorrhagic Fever Laboratory, Kenema Government Hospital, Kenema, Sierra Leone.ORCID 0000-0002-4329-0795
Donwilliams O OmuoyoKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.
Dorcas MaruapulaBotswana Harvard AIDS Institute Partnership and Botswana Harvard HIV Reference Laboratory, Gaborone, Botswana.
Dorcas W WanjohiInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.
Ebenezer Foster-NyarkoQuadram Institute Bioscience, Norwich, UK.
Eddy K LusamakiPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.ORCID 0000-0001-9795-0165
Edgar SimulunduMacha Research Trust, Choma, Zambia.ORCID 0000-0001-9423-0816
Edidah M Ong'eraKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.
Edith N NgabanaPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.
Edward O AbworoInternational Livestock Research Institute (ILRI), Nairobi, Kenya.
Edward OtienoKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0002-8014-7306
Edwin ShumbaAfrican Society for Laboratory Medicine, Addis Ababa, Ethiopia.
Edwine BarasaKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0001-5793-7177
El Bara AhmedINRSP, Nouakchott, Mauritania.
Elhadi A AhmedDepartment of Microbiology, Faculty of Medical Laboratory Sciences, University of Gezira, Gezira, Sudan.
Emmanuel LokiloPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.ORCID 0000-0001-7581-9801
Enatha MukantwariRwanda National Reference Laboratory, Kigali, Rwanda.ORCID 0000-0002-4381-2098
Eromon PhilomenaAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Essia BelarbiRobert Koch-Institute, Berlin, Germany.ORCID 0000-0002-9531-818X
Etienne Simon-LoriereG5 Evolutionary Genomics of RNA Viruses, Institut Pasteur, Paris, France.ORCID 0000-0001-8420-7743
Etilé A AnohCHU de Bouaké, Laboratoire/Unité de Diagnostic des Virus des Fièvres Hémorragiques et Virus Émergents, Bouaké, Côte d'Ivoire.ORCID 0000-0002-3174-3574
Eusebio ManuelDirecção Nacional da Saúde Pública, Ministério da Saúde, Luanda, Angola.
Fabian LeendertzRobert Koch-Institute, Berlin, Germany.
Fahn M TawehNational Public Health Reference Laboratory-National Public Health Institute of Liberia, Monrovia, Liberia.
Fares WasfiLaboratory of Clinical Virology, WHO Reference Laboratory for Poliomyelitis and Measles in the Eastern Mediterranean Region, Pasteur Institute of Tunis, University Tunis El Manar (UTM), Tunis 1002, Tunisia.ORCID 0000-0002-0452-2856
Fatma AbdelmoulaLaboratory of Molecular and Cellular Screening Processes, Centre of Biotechnology of Sfax, University of Sfax, Sfax, Tunisia.
Faustinos T TakawiraNational Microbiology Reference Laboratory, Harare, Zimbabwe.
Fawzi DerrarNational Influenza Centre, Institut Pasteur d'Algérie, Algiers, Algeria.ORCID 0000-0002-3968-4820
Fehintola V AjogbasileAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Florette TreurnichtDepartment of Virology, National Health Laboratory Service (NHLS), Charlotte Maxeke Johannesburg Academic Hospital, Johannesburg, South Africa.
Folarin OnikepeAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0001-7283-2920
Francine NtoumiFondation Congolaise pour la Recherche Médicale, Brazzaville, Republic of the Congo.
Francisca M MuyembePathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.
Frank E Z RagomzingbaMinistère de Santé Publique et de la Solidarité Nationale, Ndjamena, Chad.
Fred A DratibiWHO Int Comoros, Moroni, Union of Comoros.
Fred-Akintunwa IyanuAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0001-8525-6213
Gabriel K MbunsuUniversité de Kinshasa (UNIKIN), Kinshasa, the Democratic Republic of the Congo.
Gaetan ThilliezQuadram Institute Bioscience, Norwich, UK.ORCID 0000-0001-8650-4477
Gemma L KayQuadram Institute Bioscience, Norwich, UK.ORCID 0000-0002-1176-8459
George O AkpedeInstitute of Lassa Fever Research and Control, Irrua Specialist Teaching Hospital, Irrua, Nigeria.
Gert U van ZylDivision of Medical Virology, Faculty of Medicine and Health Sciences, Stellenbosch University, Tygerberg, Cape Town, South Africa.ORCID 0000-0003-3021-5101
Gordon A AwandareWest African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Accra, Ghana.
Grace S KpeliUHAS COVID-19 Testing and Research Centre, University of Health and Allied Sciences, Ho, Ghana.
Grit SchubertRobert Koch-Institute, Berlin, Germany.
Gugu P MaphalalaMinistry of Health, COVID-19 Testing Laboratory, Mbabane, Kingdom of Eswatini.
Hafaliana C RanaivosonVirology Unit, Institut Pasteur de Madagascar, Antananarivo, Madagascar.ORCID 0000-0002-7161-5083
Hannah E OmunakweSatellite Molecular Laboratory, Rivers State University Teaching Hospital, Port Harcourt, Nigeria.ORCID 0000-0002-5146-5890
Harris OnyweraInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.ORCID 0000-0002-7298-4921
Haruka AbeDepartment of Emerging Infectious Diseases, Institute of Tropical Medicine, Nagasaki University, Nagasaki, Japan.ORCID 0000-0003-0141-5059
Hela KarrayCHU Habib Bourguiba, Laboratory of Microbiology, Faculty of Medicine of Sfax, University of Sfax, Sfax, Tunisia.ORCID 0000-0001-8029-7761
Hellen NansumbaCentral Public Health Laboratories (CPHL), Kampala, Uganda.
Henda TrikiLaboratory of Clinical Virology, WHO Reference Laboratory for Poliomyelitis and Measles in the Eastern Mediterranean Region, Pasteur Institute of Tunis, University Tunis El Manar (UTM), Tunis 1002, Tunisia.
Herve Albéric Adje KadjoInstitut Pasteur de Côte d'Ivoire, Departement des Virus Epidemiques, Abidjan, Côte d'Ivoire.
Hesham ElgahzalyFaculty of Medicine Ain Shams Research Institute (MASRI), Ain Shams University, Cairo, Egypt.ORCID 0000-0002-9327-286X
Hlanai GumboNational Microbiology Reference Laboratory, Harare, Zimbabwe.
Hota MathieuDoctoral School of Technical and Environmental Sciences, Department of Biology and Human Health, N'Djamena, Chad.
Hugo Kavunga-MemboPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.
Ibtihel SmetiLaboratory of Molecular and Cellular Screening Processes, Centre of Biotechnology of Sfax, University of Sfax, Sfax, Tunisia.
Idowu B OlawoyeAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Ifedayo M O AdetifaNigeria Centre for Disease Control and Prevention, Abuja, Nigeria.ORCID 0000-0003-2556-9407
Ikponmwosa OdiaInstitute of Lassa Fever Research and Control, Irrua Specialist Teaching Hospital, Irrua, Nigeria.
Ilhem Boutiba Ben BoubakerCharles Nicolle Hospital, Laboratory of Microbiology, National Influenza Center, Tunis, Tunisia.
Iluoreh Ahmed MuhammadAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Isaac SsewanyanaCentral Public Health Laboratories (CPHL), Kampala, Uganda.
Isatta WurieCollege of Medicine and Allied Health Science, University of Sierra Leone, Freetown, Sierra Leone.
Iyaloo S KonstantinusNamibia Institute of Pathology, Windhoek, Namibia.
Jacqueline Wemboo Afiwa HalatokoNational Institute of Hygiene, Lomé, Togo.
James AyeiNational Public Health Laboratory, Ministry of Health, Juba, Republic of South Sudan.
Janaki SonooVirology/Molecular Biology Department, Central Health Laboratory, Victoria Hospital, Ministry of Health and Wellness, Port Louis, Mauritius.
Jean-Claude C MakangaraPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.ORCID 0000-0002-1791-2247
Jean-Jacques M TamfumPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.
Jean-Michel HeraudInstitut Pasteur de Dakar, Dakar, Senegal.ORCID 0000-0003-1107-0859
Jeffrey G ShafferDepartment of Biostatistics and Data Science, School of Public Health and Tropical Medicine, Tulane University, New Orleans, LA, USA.ORCID 0000-0002-3941-3772
Jennifer GiandhariKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.ORCID 0000-0002-2944-4583
Jennifer MusyokiKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.
Jerome NkurunzizaWHO Burundi, Gitega, Burundi.
Jessica N UwanibeAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Jinal N BhimanNational Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.ORCID 0000-0001-6354-4003
Jiro YasudaDepartment of Emerging Infectious Diseases, Institute of Tropical Medicine, Nagasaki University, Nagasaki, Japan.ORCID 0000-0001-9928-5621
Joana MoraisGrupo de Investigação Microbiana e Imunológica, Instituto Nacional de Investigação em Saúde (National Institute for Health Research), Luanda, Angola.ORCID 0000-0002-4524-4055
Jocelyn KiconcoUganda Virus Research Institute, Entebbe, Uganda.
John D SandiViral Haemorrhagic Fever Laboratory, Kenema Government Hospital, Kenema, Sierra Leone.
John HuddlestonVaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA.ORCID 0000-0002-4250-2063
John K OdoomNoguchi Memorial Institute for Medical Research, University of Ghana, Legon, Ghana.
John M MorobeKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0003-2398-6717
John O GyapongUHAS COVID-19 Testing and Research Centre, University of Health and Allied Sciences, Ho, Ghana.ORCID 0000-0002-8415-1468
John T KayiwaMRC/UVRI and LSHTM Uganda Research Unit, Entebbe, Uganda.
Johnson C OkolieAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Joicymara S XavierCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.ORCID 0000-0002-4649-6270
Jones GyamfiUHAS COVID-19 Testing and Research Centre, University of Health and Allied Sciences, Ho, Ghana.ORCID 0000-0003-3785-9487
Joseph F WamalaWHO South Sudan, Juba, South Sudan.
Joseph H K BonneyNoguchi Memorial Institute for Medical Research, University of Ghana, Legon, Ghana.
Joseph NyandwiNational Institute of Public Health, Bujumbura, Burundi.
Josie EverattNational Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.
Joweria NakaseeguUganda Virus Research Institute, Entebbe, Uganda.
Joyce M NgoiWest African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Accra, Ghana.
Joyce NamulondoUganda Virus Research Institute, Entebbe, Uganda.
Judith U OguzieAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0003-0592-6905
Julia C AndekoCentre Interdisciplinaires de Recherches Medicales de Franceville (CIRMF), Franceville, Gabon.
Julius J LutwamaMRC/UVRI and LSHTM Uganda Research Unit, Entebbe, Uganda.ORCID 0000-0002-3210-722X
Juma J H MoggaWHO South Sudan, Juba, South Sudan.
Justin O'GradyQuadram Institute Bioscience, Norwich, UK.
Katherine J SiddleInfectious Disease and Microbiome Program, Broad Institute of Harvard and MIT, Cambridge, MA, USA.ORCID 0000-0002-1799-7295
Kathleen VictoirPasteur Network, Institut Pasteur, Paris, France.
Kayode T AdeyemiAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Kefentse A TumediBotswana Institute for Technology Research and Innovation, Gaborone, Botswana.ORCID 0000-0002-1284-5700
Kevin S CarvalhoInstituto Nacional de Saúde Pública, Praia, Cape Verde.ORCID 0000-0001-7510-9308
Khadija Said MohammedKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0001-7467-7290
Koussay DellagiPasteur Network, Institut Pasteur, Paris, France.
Kunda G MusondaZambia National Public Health Institute, Lusaka, Zambia.
Kwabena O DueduUHAS COVID-19 Testing and Research Centre, University of Health and Allied Sciences, Ho, Ghana.ORCID 0000-0001-5816-5172
Lamia Fki-BerrajahCHU Habib Bourguiba, Laboratory of Microbiology, Faculty of Medicine of Sfax, University of Sfax, Sfax, Tunisia.
Lavanya SinghKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.ORCID 0000-0002-1726-4454
Lenora M KeplerDepartment of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC, USA.ORCID 0000-0002-7888-0517
Leon BiscornetSeychelles Public Health Laboratory, Public Health Authority, Ministry of Health Seychelles, Victoria, Seychelles.ORCID 0000-0001-6074-6582
Leonardo de Oliveira MartinsQuadram Institute Bioscience, Norwich, UK.
Lucious ChabukaPublic Health Institute of Malawi, Lilongwe, Malawi.
Luicer OlubayoInstitute of Infectious Diseases and Molecular Medicine, Department of Integrative Biomedical Sciences, Computational Biology Division, University of Cape Town, Cape Town, South Africa.ORCID 0000-0002-7370-7272
Lul Deng OjokNational Public Health Laboratory, Ministry of Health, Juba, Republic of South Sudan.
Lul Lojok DengNational Public Health Laboratory, Ministry of Health, Juba, Republic of South Sudan.
Lynette I Ochola-OyierKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0003-4393-0470
Lynn TyersDivision of Medical Virology, Wellcome Centre for Infectious Diseases in Africa, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, Cape Town, South Africa.ORCID 0000-0002-0535-9165
Madisa MineNational Health Laboratory, Gaborone, Botswana.
Magalutcheemee RamuthVirology/Molecular Biology Department, Central Health Laboratory, Victoria Hospital, Ministry of Health and Wellness, Port Louis, Mauritius.ORCID 0000-0002-8638-7159
Maha MastouriLaboratory of Transmissible Diseases and Biologically Active Substances (LR99ES27), Faculty of Pharmacy, University of Monastir, Monastir, Tunisia.ORCID 0000-0003-3630-5255
Mahmoud ElHefnawiBiomedical Informatics and Chemoinformatics Group, Informatics and Systems Department, National Research Centre, Cairo, Egypt.ORCID 0000-0003-3896-6911
Maimouna MbanneInstitut Pasteur de Dakar, Dakar, Senegal.
Maitshwarelo I MatshekaBotswana Institute for Technology Research and Innovation, Gaborone, Botswana.ORCID 0000-0002-7124-9343
Malebogo KebabonyeMinistry of Health and Wellness, Gaborone, Botswana.
Mamadou DiopInstitut Pasteur de Dakar, Dakar, Senegal.
Mambu MomohViral Haemorrhagic Fever Laboratory, Kenema Government Hospital, Kenema, Sierra Leone.
Maria da Luz Lima MendonçaInstituto Nacional de Saúde Pública, Praia, Cape Verde.ORCID 0000-0002-0008-959X
Marietjie VenterZoonotic Arbo and Respiratory Virus Program, Centre for Viral Zoonoses, Department of Medical Virology, University of Pretoria, Pretoria, South Africa.ORCID 0000-0003-2696-824X
Marietou F PayeInfectious Disease and Microbiome Program, Broad Institute of Harvard and MIT, Cambridge, MA, USA.
Martin FayeInstitut Pasteur de Dakar, Dakar, Senegal.
Martin M NyagaNext Generation Sequencing Unit and Division of Virology, Faculty of Health Sciences, University of the Free State, Bloemfontein, South Africa.
Mathabo MarekaNational Reference Laboratory Lesotho, Maseru, Lesotho.
Matoke-Muhia DamarisCentre for Biotechnology Research and Development, Kenya Medical Research Institute, Nairobi, Kenya.ORCID 0000-0001-7737-8069
Maureen W MburuKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.
Maximillian G MpinaSwiss Tropical and Public Health Institute, Basel, Switzerland.ORCID 0000-0002-9300-6430
Michael OwusuDepartment of Medical Diagnostics, Kumasi Centre for Collaborative Research in Tropical Medicine, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana.ORCID 0000-0001-5066-150X
Michael R WileyUniversity of Nebraska Medical Center (UNMC), Omaha, NE, USA.ORCID 0000-0001-6688-007X
Mirabeau Y TatfengDepartment of Medical Laboratory Science, Niger Delta University, Bayelsa State, Nigeria.
Mitoha Ondo'o AyekabaLaboratorio de Investigaciones de Baney, Baney, Equatorial Guinea.
Mohamed AbouelhodaSystems and Biomedical Engineering Department, Faculty of Engineering, Cairo University, Cairo, Egypt.
Mohamed Amine BeloufaNational Influenza Centre, Institut Pasteur d'Algérie, Algiers, Algeria.
Mohamed G SeadawyBiological Prevention Department, Ministry of Defence, Cairo, Egypt.
Mohamed K KhalifaMolecular Pathology Lab, Children's Cancer Hospital, Cairo, Egypt.ORCID 0000-0002-1260-6726
Mooko Marethabile MatoboNational Reference Laboratory Lesotho, Maseru, Lesotho.
Mouhamed KaneInstitut Pasteur de Dakar, Dakar, Senegal.
Mounerou SalouLaboratoireBiolim FSS/Université de Lomé, Lomé, Togo.
Mphaphi B MbulawaMinistry of Health and Wellness, Gaborone, Botswana.
Mulenga MwendaPATH, Lusaka, Zambia.ORCID 0000-0002-9962-7027
Mushal AllamDepartment of Genetics and Genomics, College of Medicine and Health Sciences, United Arab Emirates University, Abu Dhabi, United Arab Emirates.ORCID 0000-0002-9875-6716
My V T PhanMRC/UVRI and LSHTM Uganda Research Unit, Entebbe, Uganda.ORCID 0000-0002-6905-8513
Nabil AbidLaboratory of Transmissible Diseases and Biologically Active Substances (LR99ES27), Faculty of Pharmacy, University of Monastir, Monastir, Tunisia.ORCID 0000-0001-5318-3654
Nadine RujeniRwanda National Joint Task Force COVID-19, Rwanda Biomedical Centre, Ministry of Health, Kigali, Rwanda.
Nadir AbuzaidDepartment of Microbiology, Faculty of Medical Laboratory Sciences, Omdurman Islamic University, Sudan.
Nalia IsmaelInstituto Nacional de Saúde (INS), Marracuene, Mozambique.
Nancy ElguindyCentral Public Health Laboratories (CPHL), Cairo, Egypt.
Ndeye Marieme TopInstitut Pasteur de Dakar, Dakar, Senegal.ORCID 0000-0002-8626-4140
Ndongo DiaInstitut Pasteur de Dakar, Dakar, Senegal.
Nédio MabundaInstituto Nacional de Saúde (INS), Marracuene, Mozambique.
Nei-Yuan HsiaoDivision of Medical Virology, Wellcome Centre for Infectious Diseases in Africa, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, Cape Town, South Africa.ORCID 0000-0003-4926-6216
Nelson Boricó SilochiLaboratorio de Investigaciones de Baney, Baney, Equatorial Guinea.ORCID 0000-0002-8487-6215
Ngiambudulu M FranciscoGrupo de Investigação Microbiana e Imunológica, Instituto Nacional de Investigação em Saúde (National Institute for Health Research), Luanda, Angola.ORCID 0000-0003-3255-8968
Ngonda SaasaDepartment of Disease Control, School of Veterinary Medicine, University of Zambia, Lusaka, Zambia.ORCID 0000-0001-6470-4582
Nicholas BbosaMRC/UVRI and LSHTM Uganda Research Unit, Entebbe, Uganda.
Nickson MurungaKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.
Nicksy GumedeWorld Health Organization, Africa Region, Brazzaville, Republic of the Congo.
Nicole WolterNational Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.ORCID 0000-0002-9526-0133
Nikita SitharamCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.
Nnaemeka NdodoNigeria Centre for Disease Control and Prevention, Abuja, Nigeria.ORCID 0000-0003-2792-8311
Nnennaya A AjayiInternal Medicine Department, Alex Ekwueme Federal University Teaching Hospital, Abakaliki, Nigeria.ORCID 0000-0002-2298-5846
Noël TordoInstitut Pasteur de Guinée, Conarky, Guinea.
Nokuzola MbheleDivision of Medical Virology, Wellcome Centre for Infectious Diseases in Africa, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, Cape Town, South Africa.
Norosoa H RazanajatovoVirology Unit, Institut Pasteur de Madagascar, Antananarivo, Madagascar.
Nosamiefan IguosadoloAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Nwando MbaNigeria Centre for Disease Control and Prevention, Abuja, Nigeria.
Ojide C KingsleyVirology Laboratory, Alex Ekwueme Federal University Teaching Hospital, Abakaliki, Nigeria.
Okogbenin SylvanusInstitute of Lassa Fever Research and Control, Irrua Specialist Teaching Hospital, Irrua, Nigeria.
Oladiji FemiDepartment of Epidemiology and Community Health, Faculty of Clinical Sciences. College of Health Sciences. University of Ilorin, Ilorin, Kwara State, Nigeria.ORCID 0000-0002-8507-5305
Olubusuyi M AdewumiDepartment of Virology, College of Medicine, University of Ibadan, Ibadan, Nigeria.ORCID 0000-0002-5172-5808
Olumade TestimonyAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Olusola A OgunsanyaAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Oluwatosin FakayodeDepartment of Public Health, Ministry of Health, Ilorin, Kwara State, Nigeria.
Onwe E OgahAlex Ekwueme Federal University Teaching Hospital, Abakaliki, Nigeria.
Ope-Ewe OludayoAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Ousmane FayeInstitut Pasteur de Dakar, Dakar, Senegal.ORCID 0000-0001-5239-1021
Pamela Smith-LawrenceMinistry of Health and Wellness, Gaborone, Botswana.
Pascale OndoaAfrican Society for Laboratory Medicine, Addis Ababa, Ethiopia.
Patrice CombeMayotte Hospital Center, Mayotte, France.
Patricia NabisubiThe African Center of Excellence in Bioinformatics and Data-Intensive Sciences, The Infectious Diseases Institute, Kampala, Uganda.ORCID 0000-0002-1466-695X
Patrick SemandaCentral Public Health Laboratories (CPHL), Kampala, Uganda.ORCID 0000-0002-5419-1039
Paul E OluniyiAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0002-2651-2149
Paulo ArnaldoInstituto Nacional de Saúde (INS), Marracuene, Mozambique.ORCID 0000-0001-8747-5209
Peter Kojo QuashieWest African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Accra, Ghana.ORCID 0000-0003-4114-5460
Peter O OkokhereInstitute of Lassa Fever Research and Control, Irrua Specialist Teaching Hospital, Irrua, Nigeria.
Philip BejonKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0002-2135-7549
Philippe DussartVirology Unit, Institut Pasteur de Madagascar, Antananarivo, Madagascar.ORCID 0000-0002-1931-3037
Phillip A BesterDivision of Virology, National Health Laboratory Service and University of the Free State, Bloemfontein, South Africa.
Placide K MbalaPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.
Pontiano KaleebuMRC/UVRI and LSHTM Uganda Research Unit, Entebbe, Uganda.
Priscilla AbechiAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Rabeh El-SheshenyCenter of Scientific Excellence for Influenza Viruses, National Research Centre (NRC), Cairo, Egypt.ORCID 0000-0002-8798-2240
Rageema JosephDivision of Medical Virology, Wellcome Centre for Infectious Diseases in Africa, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, Cape Town, South Africa.
Ramy Karam AzizDepartment of Microbiology and Immunology, Faculty of Pharmacy, Cairo University, Cairo, Egypt.
René G EssombaNational Public Health Laboratory, Ministry of Public Health of Cameroon, Yaoundé, Cameroon.
Reuben Ayivor-DjanieWest African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Accra, Ghana.ORCID 0000-0003-0323-5473
Richard NjouomVirology Service, Centre Pasteur of Cameroun, Yaounde, Cameroon.
Richard O PhillipsKumasi Centre for Collaborative Research in Tropical Medicine, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana.ORCID 0000-0001-8992-0222
Richmond GormanKumasi Centre for Collaborative Research in Tropical Medicine, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana.
Robert A KingsleyQuadram Institute Bioscience, Norwich, UK.
Rosa Maria D E S A Neto RodriguesCoordenadora da rede do Diagnóstico Tuberculose/HIV/COVID-19 na Instituição - Laboratório Nacional de Referência da Tuberculose em São Tomé e Príncipe, São Tomé, São Tomé and Principe.
Rosemary A AuduThe Nigerian Institute of Medical Research, Yaba, Lagos, Nigeria.ORCID 0000-0002-0330-5219
Rosina A A CarrUHAS COVID-19 Testing and Research Centre, University of Health and Allied Sciences, Ho, Ghana.ORCID 0000-0001-8391-5633
Saba GargouriCHU Habib Bourguiba, Laboratory of Microbiology, Faculty of Medicine of Sfax, University of Sfax, Sfax, Tunisia.
Saber MasmoudiLaboratory of Molecular and Cellular Screening Processes, Centre of Biotechnology of Sfax, University of Sfax, Sfax, Tunisia.
Sacha BootsmaWHO South Sudan, Juba, South Sudan.
Safietou SankheInstitut Pasteur de Dakar, Dakar, Senegal.ORCID 0000-0001-8559-2161
Sahra Isse MohamedNational Public Health Reference Laboratory (NPHRL), Mogadishu, Somalia.
Saibu FemiAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Salma MhallaUniversity of Tunis El Manar, Faculty of Medicine of Tunis, Research Laboratory LR99ES09, Tunis, Tunisia.
Salome HoschSwiss Tropical and Public Health Institute, Basel, Switzerland.ORCID 0000-0001-9290-3589
Samar Kamal KassimFaculty of Medicine Ain Shams Research Institute (MASRI), Ain Shams University, Cairo, Egypt.ORCID 0000-0002-4359-6620
Samar MethaInfectious Disease and Microbiome Program, Broad Institute of Harvard and MIT, Cambridge, MA, USA.
Sameh TrabelsiClinical and Experimental Pharmacology Lab, LR16SP02, National Center of Pharmacovigilance, University of Tunis El Manar, Tunis, Tunisia.
Sara Hassan AgwaFaculty of Medicine Ain Shams Research Institute (MASRI), Ain Shams University, Cairo, Egypt.ORCID 0000-0002-2382-0189
Sarah Wambui MwangiInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.
Seydou DoumbiaUniversity Clinical Research Center (UCRC), University of Sciences, Techniques and Technology of Bamako, Bamako, Mali.ORCID 0000-0003-1637-5600
Sheila Makiala-MandandaPathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.
Sherihane AryeeteyKumasi Centre for Collaborative Research in Tropical Medicine, Kwame Nkrumah University of Science and Technology, Kumasi, Ghana.
Shymaa S AhmedCentral Public Health Laboratories (CPHL), Cairo, Egypt.ORCID 0000-0002-0212-2437
Side Mohamed AhmedINRSP, Nouakchott, Mauritania.
Siham ElhamoumiInfectious Disease and Microbiome Program, Broad Institute of Harvard and MIT, Cambridge, MA, USA.
Sikhulile MoyoBotswana Harvard AIDS Institute Partnership and Botswana Harvard HIV Reference Laboratory, Gaborone, Botswana.ORCID 0000-0003-3821-4592
Silvia LutucutaGrupo de Investigação Microbiana e Imunológica, Instituto Nacional de Investigação em Saúde (National Institute for Health Research), Luanda, Angola.
Simani GaseitsiweBotswana Harvard AIDS Institute Partnership and Botswana Harvard HIV Reference Laboratory, Gaborone, Botswana.
Simbirie JallohViral Haemorrhagic Fever Laboratory, Kenema Government Hospital, Kenema, Sierra Leone.
Soa Fy AndriamandimbyVirology Unit, Institut Pasteur de Madagascar, Antananarivo, Madagascar.ORCID 0000-0002-6397-836X
Sobajo OguntopeAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.
Solène GrayoInstitut Pasteur de Guinée, Conarky, Guinea.
Sonia Lekana-DoukiCentre Interdisciplinaires de Recherches Medicales de Franceville (CIRMF), Franceville, Gabon.ORCID 0000-0002-8749-4263
Sophie ProsolekQuadram Institute Bioscience, Norwich, UK.
Soumeya OuangraouaCentre MURAZ, Ouagadougou, Burkina Faso.ORCID 0000-0003-2960-1873
Stephanie van WykCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.
Stephen F SchaffnerInfectious Disease and Microbiome Program, Broad Institute of Harvard and MIT, Cambridge, MA, USA.ORCID 0000-0001-6699-3568
Stephen KanyereziThe African Center of Excellence in Bioinformatics and Data-Intensive Sciences, The Infectious Diseases Institute, Kampala, Uganda.ORCID 0000-0002-2439-939X
Steve Ahuka-MundekePathogen Sequencing Lab, Institut National de Recherche Biomédicale (INRB), Kinshasa, the Democratic Republic of the Congo.
Steven RudderQuadram Institute Bioscience, Norwich, UK.
Sureshnee PillayKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.ORCID 0000-0001-9288-7996
Susan NabaddaCentral Public Health Laboratories (CPHL), Kampala, Uganda.
Sylvie BehillilNational Reference Center for Respiratory Viruses, Molecular Genetics of RNA Viruses, UMR 3569 CNRS, Université Paris Cité, Institut Pasteur, Paris, France.ORCID 0000-0002-1520-5020
Sylvie L BudiakiNational Reference Laboratory Lesotho, Maseru, Lesotho.ORCID 0000-0002-2988-5805
Sylvie van der WerfNational Reference Center for Respiratory Viruses, Molecular Genetics of RNA Viruses, UMR 3569 CNRS, Université Paris Cité, Institut Pasteur, Paris, France.ORCID 0000-0002-1148-4456
Tapfumanei MasheNational Microbiology Reference Laboratory, Harare, Zimbabwe.
Thabo MohaleNational Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.ORCID 0000-0002-6240-0275
Thanh Le-VietQuadram Institute Bioscience, Norwich, UK.ORCID 0000-0002-2106-8130
Thirumalaisamy P VelavanInstitute of Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany.ORCID 0000-0002-9809-9883
Tobias SchindlerSwiss Tropical and Public Health Institute, Basel, Switzerland.ORCID 0000-0002-5961-095X
Tongai G MapongaDivision of Medical Virology, Faculty of Medicine and Health Sciences, Stellenbosch University, Tygerberg, Cape Town, South Africa.ORCID 0000-0002-6876-3712
Trevor BedfordVaccine and Infectious Disease Division, Fred Hutchinson Cancer Center, Seattle, WA, USA.ORCID 0000-0002-4039-5794
Ugochukwu J AnyanejiKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.ORCID 0000-0002-3445-2633
Ugwu ChineduAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0002-6347-1593
Upasana RamphalKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.ORCID 0000-0002-2441-3868
Uwem E GeorgeAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0001-5474-1048
Vincent EnoufNational Reference Center for Respiratory Viruses, Molecular Genetics of RNA Viruses, UMR 3569 CNRS, Université Paris Cité, Institut Pasteur, Paris, France.ORCID 0000-0001-7609-4742
Vishvanath NeneInternational Livestock Research Institute (ILRI), Nairobi, Kenya.
Vivianne GorovaWorld Health Organization, WHO Lesotho, Maseru, Lesotho.
Wael H RoshdyCentral Public Health Laboratories (CPHL), Cairo, Egypt.ORCID 0000-0001-8412-3128
Wasim Abdul KarimCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.
William K AmpofoDepartment of Virology, Noguchi Memorial Institute for Medical Research, University of Ghana, Legon, Ghana.
Wolfgang PreiserDivision of Medical Virology, Faculty of Medicine and Health Sciences, Stellenbosch University, Tygerberg, Cape Town, South Africa.ORCID 0000-0002-0254-7910
Wonderful T ChogaBotswana Harvard AIDS Institute Partnership and Botswana Harvard HIV Reference Laboratory, Gaborone, Botswana.
Yahaya Ali AhmedWorld Health Organization, Africa Region, Brazzaville, Republic of the Congo.ORCID 0000-0001-8919-1314
Yajna RamphalCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.
Yaw BediakoWest African Centre for Cell Biology of Infectious Pathogens (WACCBIP), College of Basic and Applied Sciences, University of Ghana, Accra, Ghana.ORCID 0000-0001-9786-7564
Yeshnee NaidooKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.
Yvan ButeraRwanda National Joint Task Force COVID-19, Rwanda Biomedical Centre, Ministry of Health, Kigali, Rwanda.ORCID 0000-0002-0648-2384
Zaydah R de LaurentKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0002-2619-0856
Africa Pathogen Genomics Initiative (Africa PGI)‡
Ahmed E O OumaInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.
Anne von GottbergNational Institute for Communicable Diseases (NICD) of the National Health Laboratory Service (NHLS), Johannesburg, South Africa.ORCID 0000-0002-0243-7455
George GithinjiKEMRI-Wellcome Trust Research Programme, Kilifi, Kenya.ORCID 0000-0001-9640-7371
Matshidiso MoetiWorld Health Organization, Africa Region, Brazzaville, Republic of the Congo.
Oyewale TomoriAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0002-6959-5749
Pardis C SabetiInfectious Disease and Microbiome Program, Broad Institute of Harvard and MIT, Cambridge, MA, USA.ORCID 0000-0002-9843-1890
Amadou A SallInstitut Pasteur de Dakar, Dakar, Senegal.
Samuel O OyolaInternational Livestock Research Institute (ILRI), Nairobi, Kenya.
Yenew K TebejeInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.
Sofonias K TessemaInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.
Tulio de OliveiraCentre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.ORCID 0000-0002-3027-5254
Christian HappiAfrican Centre of Excellence for Genomics of Infectious Diseases (ACEGID), Redeemer's University, Ede, Osun State, Nigeria.ORCID 0000-0002-3056-6705
Richard LessellsKwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), Nelson R Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.ORCID 0000-0003-0926-710X
John NkengasongInstitute of Pathogen Genomics, Africa Centres for Disease Control and Prevention (Africa CDC), Addis Ababa, Ethiopia.
Eduan Wilkinson *Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.ORCID 0000-0002-2503-9441
Africa Centres for Disease Control and Prevention · ETRedeemer's University · NGStellenbosch University · ZAKenya Medical Research Institute · KENational Health Laboratory Service · ZAInstitut Pasteur de Dakar · SNUniversity of Ghana · GHQuadram Institute · GBUniversity of KwaZulu-Natal · ZABroad Institute · USUniversity of Kinshasa · CDUniversity of Sfax · TNWorld Health Organization Regional Office for Africa · CGAin Shams University · EGUniversity of Monastir · TNUniversity of Cape Town · ZAUniversity of Ibadan · NGInstituto Nacional de Saúde · MZInstitut Pasteur de Madagascar · MGInternational Livestock Research Institute · KE
Funding
H3ABioNet: a sustainable African Bioinformatics Network for H3AfricaU41HG006941 · NHGRI · UNIVERSITY OF CAPE TOWN · PI MULDER, NICOLA · 2012 to 2017
$14.8MUniversity of Washington Arboviral Research Network (UWARN)U01AI151698 · NIAID · UNIVERSITY OF WASHINGTON · PI Michael Gale, PETER MACGARR RABINOWITZ · 2020 to 2026
$13.3MWest African Emerging Infectious Disease Research Center (WA-EIDRC)U01AI151812 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI ANDERSEN, KRISTIAN GRAUGAARD, GARRY, ROBERT F · 2020 to 2024
$13.2MSequencing and Genomics CoresU19AI089696 · NIAID · TULANE UNIVERSITY OF LOUISIANA · PI KROGSTAD, DONALD JOHN · 2010 to 2016
$10.6MMultidisciplinary Implementation Research for malaria control and elimination in West AfricaU19AI129387 · NIAID · UNIV OF SCIENCES, TECH & TECH OF BAMAKO · PI SEYDOU DOUMBIA · 2017 to 2026
$8.2MRole of Data Streams In Informing Infection Dynamics in Africa- INFORM AfricaU54TW012041 · FIC · INSTITUTE OF HUMAN VIROLOGY · PI Alash'le G. Abimiku, Tulio de Paiva Nazareth Andrade De Oliveira · 2021 to 2026
$6.9MUtilize Microbial Metagenomics for Viral Pathogen CharacterizationU54HG007480 · NHGRI · REDEEMER'S UNIVERSITY · PI HAPPI, CHRISTIAN T. · 2017 to 2022
$5.5MTraining in HIV Genomics, Treatment, and Cure Research in BotswanaD43TW009610 · FIC · THE BOTSWANA HARVARD HEALTH PARTNERSHIP · PI SHAHIN LOCKMAN, Joseph Moeketsi Makhema · 2013 to 2026
$4.4MMentoring in Patient-Oriented HIV Research in the Era of Universal ARTK24AI131928 · NIAID · BRIGHAM AND WOMEN'S HOSPITAL · PI SHAHIN LOCKMAN · 2017 to 2026
$1.9MExpansion of research and mentoring to improve birth outcomes and treatment outcomes among HIV-affected children in BotswanaK24AI131924 · NIAID · HARVARD UNIVERSITY D/B/A HARVARD SCHOOL OF PUBLIC HEALTH · PI Roger L Shapiro · 2018 to 2026
$1.6MHost and Microbial Genetic Determinants of Febrile Illness in West AfricaU01HG007480 · NHGRI · REDEEMER'S UNIVERSITY · PI HAPPI, CHRISTIAN T. · 2013 to 2016
$1.6MWest African Center of Excellence for Global Health Bioinformatics Research TrainingU2RTW010673 · FIC · UNIV OF SCIENCES, TECH & TECH OF BAMAKO · PI DOUMBIA, SEYDOU, LI, JIAN · 2017 to 2021
$1.2MFIC NIH HHS D43 TW009610FIC NIH HHS U2R TW010673FIC NIH HHS U54 TW012041Gates Foundation INV-018030Gates Foundation INV-018978Gates Foundation INV-018979Medical Research Council MC_PC_19026Medical Research Council MC_PC_20001Medical Research Council MC_PC_20045Medical Research Council MC_UU_00027/1Medical Research Council MC_UU_12014/12Medical Research Council MR/J01477X/1Medical Research Council MR/P028071/1NCIRD CDC HHS H23 IP000930NCIRD CDC HHS U01 IP001048NCIRD CDC HHS U51 IP000812NHGRI NIH HHS U01 HG007480NHGRI NIH HHS U41 HG006941NHGRI NIH HHS U54 HG007480NIAID NIH HHS K24 AI131924NIAID NIH HHS K24 AI131928NIAID NIH HHS U01 AI151698NIAID NIH HHS U01 AI151812NIAID NIH HHS U19 AI089696NIAID NIH HHS U19 AI129387Wellcome TrustWorld Health Organization 001
Abstract
Investment in severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) sequencing in Africa over the past year has led to a major increase in the number of sequences that have been generated and used to track the pandemic on the continent, a number that now exceeds 100,000 genomes. Our results show an increase in the number of African countries that are able to sequence domestically and highlight that local sequencing enables faster turnaround times and more-regular routine surveillance. Despite limitations of low testing proportions, findings from this genomic surveillance study underscore the heterogeneous nature of the pandemic and illuminate the distinct dispersal dynamics of variants of concern-particularly Alpha, Beta, Delta, and Omicron-on the continent. Sustained investment for diagnostics and genomic surveillance in Africa is needed as the virus continues to evolve while the continent faces many emerging and reemerging infectious disease threats. These investments are crucial for pandemic preparedness and response and will serve the health of the continent well into the 21st century.
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COVID-19Epidemiological MonitoringPandemicsSARS-CoV-2AfricaGenomicsHumans
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.