| Title: |
The evolving SARS-CoV-2 epidemic in Africa : insights from rapidly expanding genomic surveillance |
| Authors: |
Tegally, Houriiyah; San, James E.; Cotten, Matthew; Moir, Monika; Tegomoh, Bryan; Mboowa, Gerald; Martin, Darren P.; Baxter, Cheryl; Lambisia, Arnold W.; Diallo, Amadou; Amoako, Daniel G.; Diagne, Moussa M.; Sisay, Abay; Zekri, Abdel-Rahman N.; Gueye, Abdou Salam; Sangare, Abdoul K.; Ouedraogo, Abdoul-Salam; Sow, Abdourahmane; Musa, Abdualmoniem O.; Sesay, Abdul K.; Abias, Abe G.; Elzagheid, Adam I.; Lagare, Adamou; Kemi, Adedotun-Sulaiman; Abar, Aden Elmi; Johnson, Adeniji A.; Fowotade, Adeola; Oluwapelumi, Adeyemi O.; Amuri, Adrienne A.; Juru, Agnes; Kandeil, Ahmed; Mostafa, Ahmed; Rebai, Ahmed; Sayed, Ahmed; Kazeem, Akano; Balde, Aladje; Christoffels, Alan; Trotter, Alexander J.; Campbell, Allan; Keita, Alpha K.; Kone, Amadou; Bouzid, Amal; Souissi, Amal; Agweyu, Ambrose; Naguib, Amel; Gutierrez, Ana V.; Nkeshimana, Anatole; Page, Andrew J.; Yadouleton, Anges; Vinze, Anika; Happi, Anise N.; Chouikha, Anissa; Iranzadeh, Arash; Maharaj, Arisha; Batchi-Bouyou, Armel L.; Ismail, Arshad; Sylverken, Augustina A.; Goba, Augustine; Femi, Ayoade; Sijuwola, Ayotunde E.; Marycelin, Baba; Salako, Babatunde L.; Oderinde, Bamidele S.; Bolajoko, Bankole; Diarra, Bassirou; Herring, Belinda L.; Tsofa, Benjamin; Lekana-Douki, Bernard; Mvula, Bernard; Njanpop-Lafourcade, Berthe-Marie; Marondera, Blessing T.; Khaireh, Bouh Abdi; Kouriba, Bourema; Adu, Bright; Pool, Brigitte; McInnis, Bronwyn; Brook, Cara; Williamson, Carolyn; Nduwimana, Cassien; Anscombe, Catherine; Pratt, Catherine B.; Scheepers, Cathrine; Akoua-Koffi, Chantal G.; Agoti, Charles N.; Mapanguy, Chastel M.; Loucoubar, Cheikh; Onwuamah, Chika K.; Ihekweazu, Chikwe; Malaka, Christian N.; Peyrefitte, Christophe; Grace, Chukwa; Omoruyi, Chukwuma E.; Rafaï, Clotaire D.; Morang’a, Collins M.; Erameh, Cyril; Lule, Daniel B.; Bridges, Daniel J.; Mukadi-Bamuleka, Daniel; Park, Danny; Rasmussen, David A.; Baker, David; Nokes, D. James; Ssemwanga, Deogratius; Tshiabuila, Derek; Amuzu, Dominic S. Y.; Goedhals, Dominique; Grant, Donald S.; Omuoyo, Donwilliams O.; Maruapula, Dorcas; Wanjohi, Dorcas W.; Foster-Nyarko, Ebenezer; Lusamaki, Eddy K.; Simulundu, Edgar; Ong’era, Edidah M.; Ngabana, Edith N.; Abworo, Edward O.; Otieno, Edward; Shumba, Edwin; Barasa, Edwine; Ahmed, El Bara; Ahmed, Elhadi A.; Lokilo, Emmanuel; Mukantwari, Enatha; Philomena, Eromon; Belarbi, Essia; Simon-Loriere, Etienne; Anoh, Etilé A.; Manuel, Eusebio; Leendertz, Fabian; Taweh, Fahn M.; Wasfi, Fares; Abdelmoula, Fatma; Takawira, Faustinos T.; Derrar, Fawzi; Ajogbasile, Fehintola V.; Treurnicht, Florette; Onikepe, Folarin; Ntoumi, Francine; Muyembe, Francisca M.; Ragomzingba, Frank E. Z.; Dratibi, Fred A.; Iyanu, Fred-Akintunwa; Mbunsu, Gabriel K.; Thilliez, Gaetan; Kay, Gemma L.; Akpede, George O.; van Zyl, Gert U.; Awandare, Gordon A.; Kpeli, Grace S.; Schubert, Grit; Maphalala, Gugu P.; Ranaivoson, Hafaliana C.; Omunakwe, Hannah E.; Onywera, Harris; Abe, Haruka; Karray, Hela; Nansumba, Hellen; Triki, Henda; Kadjo, Herve Albéric Adje; Elgahzaly, Hesham; Gumbo, Hlanai; Mathieu, Hota; Kavunga-Membo, Hugo; Smeti, Ibtihel; Olawoye, Idowu B.; Adetifa, Ifedayo M. O.; Odia, Ikponmwosa; Ben Boubaker, Ilhem Boutiba; Mohammad, Iluoreh Ahmed; Ssewanyana, Isaac; Wurie, Isatta; Konstantinus, Iyaloo S.; Halatoko, Jacqueline Wemboo Afiwa; Ayei, James; Sonoo, Janaki; Makangara, Jean-Claude C.; Tamfum, Jean-Jacques M.; Heraud, Jean-Michel; Shaffer, Jeffrey G.; Giandhari, Jennifer; Musyoki, Jennifer; Nkurunziza, Jerome; Uwanibe, Jessica N.; Bhiman, Jinal N.; Yasuda, Jiro; Morais, Joana; Kiconco, Jocelyn; Sandi, John D.; Huddleston, John; Odoom, John K.; Morobe, John M.; Gyapong, John O.; Kayiwa, John T.; Okolie, Johnson C.; Xavier, Joicymara S.; Gyamfi, Jones; Wamala, Joseph F.; Bonney, Joseph H. K.; Nyandwi, Joseph; Everatt, Josie; Nakaseegu, Joweria; Ngoi, Joyce M.; Namulondo, Joyce; Oguzie, Judith U.; Andeko, Julia C.; Lutwama, Julius J.; Mogga, Juma J. H.; O’Grady, Justin; Siddle, Katherine J.; Victoir, Kathleen; Adeyemi, Kayode T.; Tumedi, Kefentse A.; Carvalho, Kevin S.; Mohammed, Khadija Said; Dellagi, Koussay; Musonda, Kunda G.; Duedu, Kwabena O.; Fki-Berrajah, Lamia; Singh, Lavanya; Kepler, Lenora M.; Biscornet, Leon; de Oliveira Martins, Leonardo; Chabuka, Lucious; Olubayo, Luicer; Ojok, Lul Deng; Deng, Lul Lojok; Ochola-Oyier, Lynette I.; Tyers, Lynn; Mine, Madisa; Ramuth, Magalutcheemee; Mastouri, Maha; ElHefnawi, Mahmoud; Mbanne, Maimouna; Matsheka, Maitshwarelo I.; Kebabonye, Malebogo; Diop, Mamadou; Momoh, Mambu; Lima Mendonça, Maria da Luz; Venter, Marietjie; Paye, Marietou F.; Faye, Martin; Nyaga, Martin M.; Mareka, Mathabo; Damaris, Matoke-Muhia; Mburu, Maureen W.; Mpina, Maximillian G.; Owusu, Michael; Wiley, Michael R.; Tatfeng, Mirabeau Y.; Ayekaba, Mitoha Ondo’o; Abouelhoda, Mohamed; Beloufa, Mohamed Amine; Seadawy, Mohamed G.; Khalifa, Mohamed K.; Matobo, Mooko Marethabile; Kane, Mouhamed; Salou, Mounerou; Mbulawa, Mphaphi B.; Mwenda, Mulenga; Allam, Mushal; Phan, My V. T.; Abid, Nabil; Rujeni, Nadine; Abuzaid, Nadir; Ismael, Nalia; Elguindy, Nancy; Top, Ndeye Marieme; Dia, Ndongo; Mabunda, Nédio; Hsiao, Nei-yuan; Silochi, Nelson Boricó; Francisco, Ngiambudulu M.; Saasa, Ngonda; Bbosa, Nicholas; Murunga, Nickson; Gumede, Nicksy; Wolter, Nicole; Sitharam, Nikita; Ndodo, Nnaemeka; Ajayi, Nnennaya A.; Tordo, Noël; Mbhele, Nokuzola; Razanajatovo, Norosoa H.; Iguosadolo, Nosamiefan; Mba, Nwando; Kingsley, Ojide C.; Sylvanus, Okogbenin; Femi, Oladiji; Adewumi, Olubusuyi M.; Testimony, Olumade; Ogunsanya, Olusola A.; Fakayode, Oluwatosin; Ogah, Onwe E.; Oludayo, Ope-Ewe; Faye, Ousmane; Smith-Lawrence, Pamela; Ondoa, Pascale; Combe, Patrice; Nabisubi, Patricia; Semanda, Patrick; Oluniyi, Paul E.; Arnaldo, Paulo; Quashie, Peter Kojo; Okokhere, Peter O.; Bejon, Philip; Dussart, Philippe; Bester, Phillip A.; Mbala, Placide K.; Kaleebu, Pontiano; Abechi, Priscilla; El-Shesheny, Rabeh; Joseph, Rageema; Aziz, Ramy Karam; Essomba, René G.; Ayivor-Djanie, Reuben; Njouom, Richard; Phillips, Richard O.; Gorman, Richmond; Kingsley, Robert A.; Neto Rodrigues, Rosa Maria D. E. S. A.; Audu, Rosemary A.; Carr, Rosina A. A.; Gargouri, Saba; Masmoudi, Saber; Bootsma, Sacha; Sankhe, Safietou; Mohamed, Sahra Isse; Femi, Saibu; Mhalla, Salma; Hosch, Salome; Kassim, Samar Kamal; Metha, Samar; Trabelsi, Sameh; Agwa, Sara Hassan; Mwangi, Sarah Wambui; Doumbia, Seydou; Makiala-Mandanda, Sheila; Aryeetey, Sherihane; Ahmed, Shymaa S.; Ahmed, Side Mohamed; Elhamoumi, Siham; Moyo, Sikhulile; Lutucuta, Silvia; Gaseitsiwe, Simani; Jalloh, Simbirie; Andriamandimby, Soa Fy; Oguntope, Sobajo; Grayo, Solène; Lekana-Douki, Sonia; Prosolek, Sophie; Ouangraoua, Soumeya; van Wyk, Stephanie; Schaffner, Stephen F.; Kanyerezi, Stephen; Ahuka-Mundeke, Steve; Rudder, Steven; Pillay, Sureshnee; Nabadda, Susan; Behillil, Sylvie; Budiaki, Sylvie L.; van der Werf, Sylvie; Mashe, Tapfumanei; Mohale, Thabo; Le-Viet, Thanh; Velavan, Thirumalaisamy P.; Schindler, Tobias; Maponga, Tongai G.; Bedford, Trevor; Anyaneji, Ugochukwu J.; Chinedu, Ugwu; Ramphal, Upasana; George, Uwem E.; Enouf, Vincent; Nene, Vishvanath; Gorova, Vivianne; Roshdy, Wael H.; Karim, Wasim Abdul; Ampofo, William K.; Preiser, Wolfgang; Choga, Wonderful T.; Ahmed, Yahaya Ali; Ramphal, Yajna; Bediako, Yaw; Naidoo, Yeshnee; Butera, Yvan; de Laurent, Zaydah R.; Ouma, Ahmed E. O.; von Gottberg, Anne; Githinji, George; Moeti, Matshidiso; Tomori, Oyewale; Sabeti, Pardis C.; Sall, Amadou A.; Oyola, Samuel O.; Tebeje, Yenew K.; Tessema, Sofonias K.; de Oliveira, Tulio; Happi, Christian; Lessells, Richard; Nkengasong, John; Wilkinson, Eduan |
| Publisher Information: |
American Association for the Advancement of Science |
| Publication Year: |
2022 |
| Collection: |
The University of Warwick: WRAP - Warwick Research Archive Portal |
| Subject Terms: |
QP Physiology; RA Public aspects of medicine |
| Description: |
Investment in SARS-CoV-2 sequencing in Africa over the past year has led to a major increase in the number of sequences generated, now exceeding 100,000 genomes, used to track the pandemic on the continent. Our results show an increase in the number of African countries able to sequence domestically, and highlight that local sequencing enables faster turnaround time 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 shed light on 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 re-emerging 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. |
| Document Type: |
article in journal/newspaper |
| File Description: |
application/pdf |
| Language: |
English |
| ISSN: |
0036-8075 |
| Relation: |
https://wrap.warwick.ac.uk/id/eprint/169516/1/WRAP-evolving-SARS-CoV-2-epidemic-Africa-insights-genomic-surveillance-22.pdf; Tegally, Houriiyah, San, James E., Cotten, Matthew, Moir, Monika, Tegomoh, Bryan, Mboowa, Gerald, Martin, Darren P., Baxter, Cheryl, Lambisia, Arnold W., Diallo, Amadou et al. (2022) The evolving SARS-CoV-2 epidemic in Africa : insights from rapidly expanding genomic surveillance. Science, 378 (6615). eabq5358. doi:10.1126/science.abq5358 ISSN 0036-8075. |
| DOI: |
10.1126/science.abq5358 |
| Availability: |
https://wrap.warwick.ac.uk/id/eprint/169516/; https://doi.org/10.1126/science.abq5358 |
| Rights: |
cc_by_4 |
| Accession Number: |
edsbas.F80FA591 |
| Database: |
BASE |