Innovations in genomic antimicrobial resistance surveillance.

Wheeler, Nicole E, Price, Vivien, Cunningham-Oakes, Edward, Tsang, Kara K, Nunn, Jamie G, Midega, Janet T, Anjum, Muna F, Wade, Matthew J, Feasey, Nicholas ORCID: https://orcid.org/0000-0003-4041-1405, Peacock, Sharon J, Jauneikaite, Elita and Baker, Kate S (2023) 'Innovations in genomic antimicrobial resistance surveillance.'. Lancet Microbe, Vol 4, Issue 12, e1063-e1070.

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Abstract

Whole-genome sequencing of antimicrobial-resistant pathogens is increasingly being used for antimicrobial resistance (AMR) surveillance, particularly in high-income countries. Innovations in genome sequencing and analysis technologies promise to revolutionise AMR surveillance and epidemiology; however, routine adoption of these technologies is challenging, particularly in low-income and middle-income countries. As part of a wider series of workshops and online consultations, a group of experts in AMR pathogen genomics and computational tool development conducted a situational analysis, identifying the following under-used innovations in genomic AMR surveillance: clinical metagenomics, environmental metagenomics, gene or plasmid tracking, and machine learning. The group recommended developing cost-effective use cases for each approach and mapping data outputs to clinical outcomes of interest to justify additional investment in capacity, training, and staff required to implement these technologies. Harmonisation and standardisation of methods, and the creation of equitable data sharing and governance frameworks, will facilitate successful implementation of these innovations.

Item Type:	Article
Corporate Authors:	SEDRIC Genomics Surveillance Working Group
Subjects:	QU Biochemistry > Genetics > QU 460 Genomics. Proteomics QW Microbiology and Immunology > QW 45 Microbial drug resistance. General or not elsewhere classified.
Faculty: Department:	Clinical Sciences & International Health > Clinical Sciences Department
Digital Object Identifer (DOI):	https://doi.org/10.1016/S2666-5247(23)00285-9
SWORD Depositor:	JISC Pubrouter
Depositing User:	JISC Pubrouter
Date Deposited:	10 Jan 2024 14:00
Last Modified:	10 Jan 2024 14:00
URI:	https://archive.lstmed.ac.uk/id/eprint/23600

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