期刊
CLINICAL INFECTIOUS DISEASES
卷 73, 期 -, 页码 S258-S266出版社
OXFORD UNIV PRESS INC
DOI: 10.1093/cid/ciab796
关键词
whole-genome sequencing; WGS; microbiology laboratory; antimicrobial resistance; AMR surveillance
资金
- Official Development Assistance (ODA) from National Institute for Health Research [16_136_111]
- Wellcome Trust [206194]
- National Institute for Health Research using Official Development Assistance (ODA)
Antimicrobial resistance (AMR) is a global threat, and incorporating whole-genome sequencing (WGS) can enhance phenotypic data in epidemiological surveillance. Despite the high initial investment required for laboratory infrastructure and maintenance, on-boarding WGS capabilities can greatly improve real-time processing power within regional and national AMR surveillance initiatives.
Antimicrobial resistance (AMR) is considered a global threat, and novel drug discovery needs to be complemented with systematic and standardized epidemiological surveillance. Surveillance data are currently generated using phenotypic characterization. However, due to poor scalability, this approach does little for true epidemiological investigations. There is a strong case for whole-genome sequencing (WGS) to enhance the phenotypic data. To establish global AMR surveillance using WGS, we developed a laboratory implementation approach that we applied within the NIHR Global Health Research Unit (GHRU) on Genomic Surveillance of Antimicrobial Resistance. In this paper, we outline the laboratory implementation at 4 units: Colombia, India, Nigeria, and the Philippines. The journey to embedding WGS capacity was split into 4 phases: Assessment, Assembly, Optimization, and Reassessment. We show that on-boarding WGS capabilities can greatly enhance the real-time processing power within regional and national AMR surveillance initiatives, despite the high initial investment in laboratory infrastructure and maintenance. Countries looking to introduce WGS as a surveillance tool could begin by sequencing select Global Antimicrobial Resistance Surveillance System (GLASS) priority pathogens that can demonstrate the standardization and impact genome sequencing has in tackling AMR.
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