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

Africa Pathogen Genomics Initiative (Africa PGI)‡

Research output: Contribution to journalArticlepeer-review

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.

Original languageEnglish
Article numbereabq5358
JournalScience
Volume378
Issue number6615
Early online date15 Sep 2022
DOIs
Publication statusPublished - 7 Oct 2022

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