Advancing pathogen genomics in resource-limited settings

Advancing pathogen genomics in resource-limited settings

Cell Genomics

10.1016/j.xgen.2023.100443

https://doi.org/10.1016/j.xgen.2023.100443

Paul Michael Pronyk, Ruklanthi de Alwis, Rebecca Rockett, Kerri Basile, Yann Felix Boucher, Vincent Pang, October Sessions, Marya Getchell, Tanya Golubchik, Connie Lam, Raymond Lin, Tze-Minn Mak, Ben Marais, Rick Twee-Hee Ong, Hannah Eleanor Clapham, Linfa Wang, Yorin Cahyorini, Francisco Gerardo M. Polotan, Yuni Rukminiati, Eby Sim, Carl Suster, Gavin J.D. Smith, Vitali Sintchenko

genomics, pathogen genomics, surveillance, whole-genome sequencing, emerging infectious diseases, resource-limited settings

17 November 2023

Pronyk, P. M., de Alwis, R., Rockett, R., Basile, K., Boucher, Y. F., Pang, V., Sessions, O., Getchell, M., Golubchik, T., Lam, C., Lin, R., Mak, T.-M., Marais, B., Twee-Hee Ong, R., Clapham, H. E., Wang, L., Cahyorini, Y., Polotan, F. G. M., Rukminiati, Y., … Sintchenko, V. (2023). Advancing pathogen genomics in resource-limited settings. Cell Genomics, 3(12), 100443. https://doi.org/10.1016/j.xgen.2023.100443

Genomic sequencing has emerged as a powerful tool to enhance early pathogen detection and characterization with implications for public health and clinical decision making. Although widely available in developed countries, the application of pathogen genomics among low-resource, high-disease burden settings remains at an early stage. In these contexts, tailored approaches for integrating pathogen genomics within infectious disease control programs will be essential to optimize cost efficiency and public health impact. We propose a framework for embedding pathogen genomics within national surveillance plans across a spectrum of surveillance and laboratory capacities. We adopt a public health approach to genomics and examine its application to high-priority diseases relevant in resource-limited settings. For each grouping, we assess the value proposition for genomics to inform public health and clinical decision-making, alongside its contribution toward research and development of novel diagnostics, therapeutics, and vaccines.

Attribution 4.0 International (CC BY 4.0)

This research is supported by core funding from: A*STAR - Bioinformatics Institute

https://oar.a-star.edu.sg/communities-collections/articles/22714

2666-979X

Bioinformatics Institute