Advancing pathogen genomics in resource-limited settings
Paul PronykCentre for Outbreak Preparedness, Duke-NUS Medical School, Singapore 169857, Singapore. Electronic address: [email protected]Ruklanthi de AlwisCentre for Outbreak Preparedness, Duke-NUS Medical School, Singapore 169857, Singapore; Emerging Infectious Diseases Programme, Duke-NUS Medical School, Singapore 169857, SingaporeRebecca J. RockettSydney Infectious Diseases Institute, The University of Sydney, Camperdown, NSW 2006, Australia; Centre for Infectious Diseases and Microbiology - Public Health, Westmead Hospital, Westmead, NSW 2145, AustraliaKerri BasileCentre for Infectious Diseases and Microbiology Laboratory Services, NSW Health Pathology - Institute of Clinical Pathology and Medical Research, Westmead, NSW 2145, AustraliaYan BoucherSaw Swee Hock School of Public Health, National University of Singapore and National University Health System, Singapore 117549, Singapore; Infectious Diseases Translational Research Programme, Department of Microbiology and Immunology, Yong Loo Lin School of Medicine, National University of Singapore and National University Health System, Singapore 117549, Singapore; Singapore Centre for Environmental Life Sciences Engineering, National University of Singapore, Singapore 117549, Singapore; Nanyang Technological University, Singapore 639798, SingaporeVincent PangCentre for Outbreak Preparedness, Duke-NUS Medical School, Singapore 169857, SingaporeOctober M. SessionsSydney Infectious Diseases Institute, The University of Sydney, Camperdown, NSW 2006, AustraliaMarya GetchellCentre for Outbreak Preparedness, Duke-NUS Medical School, Singapore 169857, SingaporeTanya GolubchikSydney Infectious Diseases Institute, The University of Sydney, Camperdown, NSW 2006, Australia; Centre for Infectious Diseases and Microbiology - Public Health, Westmead Hospital, Westmead, NSW 2145, Australia; Big Data Institute, Nuffield Department of Medicine, University of Oxford, Oxford OX3 7LF, UKConnie LamSydney Infectious Diseases Institute, The University of Sydney, Camperdown, NSW 2006, Australia; Centre for Infectious Diseases and Microbiology - Public Health, Westmead Hospital, Westmead, NSW 2145, AustraliaRaymond LinNational Public Health Laboratory, National Centre for Infectious Diseases, Singapore 308442, SingaporeTze Minn MakBioinformatics Institute, Agency for Science, Technology and Research, Singapore 138671, SingaporeBen J. MaraisSydney Infectious Diseases Institute, The University of Sydney, Camperdown, NSW 2006, AustraliaRick Twee‐Hee OngSaw Swee Hock School of Public Health, National University of Singapore and National University Health System, Singapore 117549, SingaporeHannah ClaphamSaw Swee Hock School of Public Health, National University of Singapore and National University Health System, Singapore 117549, SingaporeLin‐Fa WangEmerging Infectious Diseases Programme, Duke-NUS Medical School, Singapore 169857, Singapore; Programme for Research in Epidemic Preparedness and Response (PREPARE), Ministry of Health, Singapore 169854, SingaporeYorin CahyoriniCenter for Health Resilience and Resource Policy, Ministry of Health, Jakarta 12950, IndonesiaFrancisco Gerardo M. PolotanMolecular Biology Laboratory, Research Institute for Tropical Medicine, Muntinlupa 1781, Metro Manila, PhilippinesYuni RukminiatiCenter for Health Resilience and Resource Policy, Ministry of Health, Jakarta 12950, IndonesiaEby SimSydney Infectious Diseases Institute, The University of Sydney, Camperdown, NSW 2006, Australia; Centre for Infectious Diseases and Microbiology - Public Health, Westmead Hospital, Westmead, NSW 2145, AustraliaCarl J. E. SusterSydney Infectious Diseases Institute, The University of Sydney, Camperdown, NSW 2006, Australia; Centre for Infectious Diseases and Microbiology - Public Health, Westmead Hospital, Westmead, NSW 2145, AustraliaGavin J. D. SmithEmerging Infectious Diseases Programme, Duke-NUS Medical School, Singapore 169857, SingaporeVitali SintchenkoSydney Infectious Diseases Institute, The University of Sydney, Camperdown, NSW 2006, Australia; Centre for Infectious Diseases and Microbiology - Public Health, Westmead Hospital, Westmead, NSW 2145, Australia; Centre for Infectious Diseases and Microbiology Laboratory Services, NSW Health Pathology - Institute of Clinical Pathology and Medical Research, Westmead, NSW 2145, Australia
2023en
ABI
Annotatsiya
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.
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