TY - JOUR
T1 - The Transformation of Reference Microbiology Methods and Surveillance for Salmonella With the Use of Whole Genome Sequencing in England and Wales
AU - Chattaway, Marie Anne
AU - Dallman, Timothy J
AU - Larkin, Lesley
AU - Nair, Satheesh
AU - McCormick, Jacquelyn
AU - Mikhail, Amy
AU - Hartman, Hassan
AU - Godbole, Gauri
AU - Powell, David
AU - Day, Martin
AU - Smith, Robert
AU - Grant, Kathie
N1 - Copyright © 2019 Chattaway, Dallman, Larkin, Nair, McCormick, Mikhail, Hartman, Godbole, Powell, Day, Smith and Grant.
PY - 2019
Y1 - 2019
N2 - The use of whole genome sequencing (WGS) as a method for supporting outbreak investigations, studying Salmonella microbial populations and improving understanding of pathogenicity has been well-described (1-3). However, performing WGS on a discrete dataset does not pose the same challenges as implementing WGS as a routine, reference microbiology service for public health surveillance. Challenges include translating WGS data into a useable format for laboratory reporting, clinical case management, Salmonella surveillance, and outbreak investigation as well as meeting the requirement to communicate that information in an understandable and universal language for clinical and public health action. Public Health England have been routinely sequencing all referred presumptive Salmonella isolates since 2014 which has transformed our approach to reference microbiology and surveillance. Here we describe an overview of the integrated methods for cross-disciplinary working, describe the challenges and provide a perspective on how WGS has impacted the laboratory and surveillance processes in England and Wales.
AB - The use of whole genome sequencing (WGS) as a method for supporting outbreak investigations, studying Salmonella microbial populations and improving understanding of pathogenicity has been well-described (1-3). However, performing WGS on a discrete dataset does not pose the same challenges as implementing WGS as a routine, reference microbiology service for public health surveillance. Challenges include translating WGS data into a useable format for laboratory reporting, clinical case management, Salmonella surveillance, and outbreak investigation as well as meeting the requirement to communicate that information in an understandable and universal language for clinical and public health action. Public Health England have been routinely sequencing all referred presumptive Salmonella isolates since 2014 which has transformed our approach to reference microbiology and surveillance. Here we describe an overview of the integrated methods for cross-disciplinary working, describe the challenges and provide a perspective on how WGS has impacted the laboratory and surveillance processes in England and Wales.
U2 - 10.3389/fpubh.2019.00317
DO - 10.3389/fpubh.2019.00317
M3 - Article
C2 - 31824904
SN - 2296-2565
VL - 7
JO - Frontiers in Public Health
JF - Frontiers in Public Health
M1 - 317
ER -