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The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance

Article scientifique 2022 Anglais

Résumé

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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Tegally, H., San, J., Cotten, M., Moir, M., Tegomoh, B., Mboowa, G., Martin, D., Baxter, C., Lambisia, A., Diallo, A., Amoako, D., Diagne, M., Sisay, A., Zekri, A., Guèye, A., Sangaré, A., Ouédraogo, A., Sow, A., Sesay, A., Abias, A., Elzagheid, A., Lagaré, A., Kemi, A., Abar, A., Johnson, A., Fowotade, A., Adeyemi, O., Amuri-Aziza, A., Juru, A., Kandeil, A., Mostafa, A., Rebaï, A., Sayed, A., Akano, K., Baldé, A., Christoffels, A., Trotter, A., Campbell, A., Kéita, A., Koné, A., Bouzid, A., Souissi, A., Agweyu, A., Naguib, A., Gutiérrez, A., Nkeshimana, A., Page, A., Yadouléton, A., Vinzé, A., Happi, A., Chouikha, A., Iranzadeh, A., Maharaj, A., Batchi‐Bouyou, A., Ismail, A., Sylverken, A., Goba, A., Ayoade, F., Sijuwola, A., M, B., Salako, B., Oderinde, B., Bolajoko, B., Diarra, B., Herring, B., Tsofa, B., Lekana-Douki, B., Mvula, B., Njanpop‐Lafourcade, B., Marondera, B., Khaireh, B., Kouriba, B., Adu, B., Pool, B., McInnis, B., Brook, C., Williamson, C., Nduwimana, C., Anscombe, C., Pratt, C., Scheepers, C., Akoua‐Koffi, C., Agoti, C., Mapanguy, C., Loucoubar, C., Onwuamah, C., Ihekweazu, C., Malaka, C., Peyrefitte, C., Grace, C., Omoruyi, C., Rafaï, C., Morang’a, C., Erameh, C., Bugembe, D., Bridges, D., Mukadi‐Bamuleka, D., Park, D., Rasmussen, D. (2022). The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance. https://doi.org/10.1126/science.abq5358

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Auteur(s)

Houriiyah Tegally James Emmanuel San Matthew Cotten Monika Moir Bryan Tegomoh Gerald Mboowa Darren P. Martin Cheryl Baxter Arnold W. Lambisia Amadou Diallo Daniel G. Amoako Moussa Moïse Diagne Abay Sisay Abdel‐Rahman N. Zekri Abdou Salam Guèye Abdoul Karim Sangaré Abdoul–Salam Ouédraogo Abdourahmane Sow Abdul Karim Sesay Abe G. Abias Adam Elzagheid Adamou Lagaré Adedotun-Sulaiman Kemi Aden Elmi Abar Adeniji A. Johnson Adeola Fowotade Oluwapelumi O. Adeyemi Adrienne Amuri-Aziza Agnes Juru Ahmed Kandeil Ahmed Mostafa Ahmed Rebaï Ahmed A. Sayed Kazeem Akano Aladje Baldé Alan Christoffels Alexander J. Trotter Allan Campbell Alpha Kabinet Kéita A. Koné Amal Bouzid Amal Souissi Ambrose Agweyu Amel Naguib Ana Victoria Gutiérrez Anatole Nkeshimana Andrew J. Page Anges Yadouléton Anika Vinzé Anise N. Happi Anissa Chouikha Arash Iranzadeh Arisha Maharaj Armel L. Batchi‐Bouyou Arshad Ismail Augustina Angelina Sylverken Augustine Goba Femi Ayoade Ayotunde E. Sijuwola Baba M Babatunde Lawal Salako Bamidele Soji Oderinde Bankole Bolajoko Bassirou Diarra Belinda L. Herring Benjamin Tsofa Bernard Lekana-Douki Bernard Mvula Berthe‐Marie Njanpop‐Lafourcade Blessing T. Marondera Bouh Abdi Khaireh Bourèma Kouriba Bright Adu Brigitte Pool Bronwyn McInnis Cara E. Brook Carolyn Williamson Cassien Nduwimana Catherine Anscombe Catherine Pratt Cathrine Scheepers Chantal Akoua‐Koffi Charles N. Agoti Chastel M. Mapanguy Cheikh Loucoubar Chika Onwuamah Chikwe Ihekweazu Christian Malaka Christophe N. Peyrefitte Chukwa Grace Chukwuma Ewean Omoruyi Clotaire Donatien Rafaï Collins M. Morang’a Cyril Erameh Daniel Lule Bugembe Daniel J. Bridges Daniel Mukadi‐Bamuleka Daniel J. Park David A. Rasmussen

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