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Genomic surveillance of SARS-CoV-2 reveals highest severity and mortality of delta over other variants: evidence from Cameroon

Article scientifique 2023 Anglais

Résumé

While the SARS-CoV-2 dynamic has been described globally, there is a lack of data from Sub-Saharan Africa. We herein report the dynamics of SARS-CoV-2 lineages from March 2020 to March 2022 in Cameroon. Of the 760 whole-genome sequences successfully generated by the national genomic surveillance network, 74% were viral sub-lineages of origin and non-variants of concern, 15% Delta, 6% Omicron, 3% Alpha and 2% Beta variants. The pandemic was driven by SARS-CoV-2 lineages of origin in wave 1 (16 weeks, 2.3% CFR), the Alpha and Beta variants in wave 2 (21 weeks, 1.6% CFR), Delta variants in wave 3 (11 weeks, 2.0% CFR), and omicron variants in wave 4 (8 weeks, 0.73% CFR), with a declining trend over time (p = 0.01208). Even though SARS-CoV-2 heterogeneity did not seemingly contribute to the breadth of transmission, the viral lineages of origin and especially the Delta variants appeared as drivers of COVID-19 severity in Cameroon.

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Fokam, J., Essomba, R., Njouom, R., Okomo, M., Eyangoh, S., Godwe, C., Tegomoh, B., Otshudiema, J., Nwobegahay, J., Ndip, L., Akenji, B., Takou, D., Moctar, M., Mbah, C., Ndze, V., Maïdadi‐Foudi, M., Kouanfack, C., Tonmeu, S., Ngono, D., Nkengasong, J., Ndembi, N., Bissek, A., Mouangue, C., Ndongo, C., Epée, E., Mandeng, N., Belinga, S., Ayouba, A., Fernandez, N., Tongo, M., Colizzi, V., Halle‐Ekane, G., Perno, C., Ndjolo, A., Ndongmo, C., Shang, J., Esso, L., de-Tulio, O., Diagne, M., Boum, Y., Mballa, G., Njock, L., Group, G., Sadeuh‐Mba, S., Ngoupou, P., Henri, M., Eyoum, B., Beloumou, G., Ngaba, G., Medi, C., Nyatte, L., Sanders, M., Amougou, M., Bille, L., Buyohnwenda, K., Ngomtcho, C., Mouliom, A., Njuwa, F., Ateba, G., Nka, A., Dimite, L., Dir, A., Eboumbou, C. (2023). Genomic surveillance of SARS-CoV-2 reveals highest severity and mortality of delta over other variants: evidence from Cameroon. https://doi.org/10.1038/s41598-023-48773-3

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Auteur(s)

Joseph Fokam René Ghislain Essomba Richard Njouom Marie-Claire Okomo Sara Eyangoh Célestin Godwe Bryan Tegomoh John Otokoye Otshudiema Julius Nwobegahay Lucy Ndip Blaise Akenji Désiré Takou Mohamed M. M. Moctar Cleophas Kahtita Mbah Valantine Ngum Ndze Martin Maïdadi‐Foudi Charles Kouanfack Sandrine Chimène Douyong Tonmeu Dorine Ngono John N. Nkengasong Nicaise Ndembi Anne‐Cecile Zoung‐Kanyi Bissek Christian Mouangue Chanceline Bilounga Ndongo Emilienne Epée Nadia Mandeng Sandrine Belinga Ahidjo Ayouba Nicolas Fernandez Marcel Tongo Vittorio Colizzi Gregory Halle‐Ekane Carlo Federico Perno Alexis Ndjolo Clement B. Ndongmo Judith D. Shang Linda Esso Oliviera de-Tulio Moussa Moïse Diagne Yap Boum Georges Alain Etoundi Mballa Louis Richard Njock Genomic Surveillance Study Group Serge Alain Sadeuh‐Mba Paul-Alain Tagnoukam Ngoupou Moumbeket Yifomnjou Moise Henri Bertrand Bille Eyoum Grâce Beloumou Guy Pascal Ngaba Christiane Ingrid Medi Lydie Nyatte Melissa E. Sanders Marie Amougou Loko Bille Kizito Atehambe Buyohnwenda Claudine Sen Henriette Ngomtcho Abas Mouliom Fai Karl Gwei Njuwa Gisele Nke Ateba Alex Durand Nka Laura Eno Dimite Adama N. Dir Carole Eboumbou

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