WASTЕWISE: Wastewater Molecular and Genomic Surveillance in African Megacities

Background

Africa’s rapidly urbanizing megacities face a convergence of public health pressures: infectious disease, antimicrobial resistance, non-communicable disease and climate-related risk, layered on top of fragile sanitation infrastructure and surveillance systems that struggle to reach informal settlements and peri-urban communities.

Mpox has become the clearest illustration of the gap. The virus now sustains human-to-human transmission, with multiple clades circulating across more than twenty African Union Member States, much of it invisible to clinic-based reporting until outbreaks are already underway.

Wastewater-based surveillance (WBS) — already proven over a decade of polio monitoring in Africa — offers a non-intrusive, population-level alternative. By reading molecular and genomic signals directly from community sewage, it can flag rising infection before the first case reaches a clinic.

WASTЕWISE applies this approach to Mpox as its flagship use case, while building a system designed from the outset to extend to other priority pathogens under a One Health framework.

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Key message

“Africa’s fastest-growing cities are outpacing the surveillance systems meant to protect them, WASTЕWISE turns the sewage network itself into an early-warning system.”

Project overview

A pilot establishing wastewater molecular and genomic surveillance to detect Mpox and other priority pathogens before clinical cases surge, led by Africa CDC and ASLM.

Project partners and funding

  • Lead organisations: Africa CDC and ASLM
  • Funding partner: European Union

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WASTEWISE Leaflets Africa CDC
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19 October 2026

Resource Type
Themes
Africa CDC Institute for Pathogen Genomics, Genomics and Bioinformatics, Laboratory Systems and Networks
Keywords
Wastewater, WASTЕWISE