Work

Routine Use of Microbial Whole Genome Sequencing in Diagnostic and Public Health Microbiology

Year: 2012

Type: review

Abstract: Whole genome sequencing (WGS) promises to be transformative for the practice of clinical microbiology, and the rapidly falling cost and turnaround time mean that this will become a viable technology in diagnostic and reference laboratories in the near future.The objective of this article is to consider at a very practical level where, in the context of a modern diagnostic microbiology laboratory, WGS might be costeffective compared to current alternatives.We propose that molecular epidemiology performed for surveillance and outbreak investigation and genotypic antimicrobial susceptibility testing for microbes that are difficult to grow represent the most immediate areas for application of WGS, and discuss the technical and infrastructure requirements for this to be implemented.

Source: PLoS Pathogens

DOI: 10.1371/journal.ppat.1002824

Authors: Claudio U. Köser, Matthew J. Ellington, Edward J. P. Cartwright, Stephen H. Gillespie, Nicholas M. Brown, Mark Farrington, Matthew T. G. Holden, Gordon Dougan, Stephen D. Bentley, Julian Parkhill, Sharon J. Peacock

Institutions: University of Cambridge, Addenbrooke's Hospital, Health Protection Agency, University of St Andrews, Wellcome Sanger Institute

Language: English

Topic: Bacterial Identification and Susceptibility Testing

Subfield: Microbiology (medical)

Field: Medicine

Domain: Health Sciences

SDG: Good health and well-being

Open Access status: gold

Estimated APC paid: $3,043

Funders: Wellcome Trust, United Kingdom Clinical Research Collaboration, Scottish Government, Cambridge Philosophical Society, National Institute for Health and Care Research, European Commission, Astellas Pharma, Directorate for Biological Sciences, Chief Scientist Office, Scottish Government Health and Social Care Directorate, Medical Research Council, Biotechnology and Biological Sciences Research Council, NIHR Cambridge Biomedical Research Centre

Awards: G4584844266, G5371099781, G6569692151

OpenAlex ID: W2122467784

FWCI: 3.597

Cites: 117

Cited by: 556

Related to: 9