Innovations in genomic antimicrobial resistance surveillance.

Autor:	Wheeler NE; Institute of Microbiology and Infection, University of Birmingham, Birmingham, Edgbaston, UK., Price V; Department of Clinical Infection, Immunology and Microbiology, Liverpool Centre for Global Health Research, University of Liverpool, Liverpool, UK., Cunningham-Oakes E; Department of Infection Biology and Microbiomes, Institute of Infection, Veterinary and Ecological Sciences, University of Liverpool, Liverpool, UK., Tsang KK; Department of Infection Biology, London School of Hygiene & Tropical Medicine, London, UK., Nunn JG; Infectious Disease Challenge Area, Wellcome Trust, London, UK., Midega JT; Drug Resistant Infections, Wellcome Trust, London, UK., Anjum MF; Department of Bacteriology, Animal and Plant Health Agency, Surrey, UK., Wade MJ; Data Analytics and Surveillance Group, UK Health Security Agency, London, UK; School of Engineering, Newcastle University, Newcastle-upon-Tyne, UK., Feasey NA; Clinical Sciences, Liverpool School of Tropical Medicine, Liverpool, UK; Malawi Liverpool Wellcome Research Programme, Chichiri, Blantyre, Malawi., Peacock SJ; Department of Medicine, University of Cambridge, Cambridge, UK., Jauneikaite E; Department of Infectious Disease Epidemiology, School of Public Health, Imperial College London, London, UK; NIHR Health Protection Research Unit in Healthcare Associated Infections and Antimicrobial Resistance, Department of Infectious Disease, Imperial College London, Hammersmith Hospital, London, UK., Baker KS; Centre for Clinical Infection, Microbiology and Immunology, University of Liverpool, Liverpool, UK; Department of Genetics, University of Cambridge, Cambridge, UK. Electronic address: kb827@cam.ac.uk.
Jazyk:	angličtina
Zdroj:	The Lancet. Microbe [Lancet Microbe] 2023 Dec; Vol. 4 (12), pp. e1063-e1070. Date of Electronic Publication: 2023 Nov 14.
DOI:	10.1016/S2666-5247(23)00285-9
Abstrakt:	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. Competing Interests: Declaration of interests NEW reports funding from Nuclear Threat Initiative, Medical Research Council (MRC), Open Philantropy, and Shionogi, as well as consulting fees from Nuclear Threat Initiative. VP reports funding from Wellcome Trust and National Institute for Health and Care Research (NIHR). NAF reports funding from the Bill & Melinda Gates Foundation, UK Research and Innovation, and NIHR. SJP is a member of the scientific advisory board of Next Gen Diagnostics, and was supported by Illumina to attend the European Society of Clinical Microbiology and Infectious Diseases conference. EJ had partial salary cover from Wellcome Trust over the course of this work. KSB reports funding from the Biotechnology and Biological Sciences Research Council and MRC and partial salary cover from Wellcome Trust and the UK Health Security Agency (UKHSA) over the course of this work. All other authors declare no competing interests. (Copyright © 2023 The Author(s). Published by Elsevier Ltd. This is an Open Access article under the CC BY 4.0 license. Published by Elsevier Ltd.. All rights reserved.)
Databáze:	MEDLINE
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