Application of Pathogen Genomics to Outbreak Investigation

Benjamin J. Parcell; Kerry A. Pettigrew; Katarina Oravcova

doi:10.1007/978-1-0716-3981-8_16

Application of Pathogen Genomics to Outbreak Investigation

Benjamin J. Parcell, Kerry A. Pettigrew, Katarina Oravcova

Teesside University

Research output: Chapter in Book/Report/Conference proceeding › Chapter

Abstract

Outbreaks are a risk to public health particularly when pathogenic, hypervirulent, and/or multidrug-resistant organisms (MDROs) are involved. In a hospital setting, vulnerable populations such as the immunosuppressed, intensive care patients, and neonates are most at risk. Rapid and accurate outbreak detection is essential to implement effective interventions in clinical areas to control and stop further transmission. Advances in the field of whole genome sequencing (WGS) have resulted in lowered costs, increased capacity, and improved reproducibility of results. WGS now has the potential to revolutionize the investigation and management of outbreaks replacing conventional genotyping and other discrimination systems. Here, we outline specific procedures and protocols to implement WGS into investigation of outbreaks in healthcare settings.

Original language	English
Title of host publication	Antibiotic Resistance Protocols
Editors	Stephen H. Gillespie
Publisher	Humana Press Inc.
Pages	161-183
Number of pages	23
Volume	2833
DOIs	https://doi.org/10.1007/978-1-0716-3981-8_16
Publication status	Published - 1 Jan 2024

Publication series

Name	Methods in Molecular Biology
Volume	2833
ISSN (Print)	1064-3745
ISSN (Electronic)	1940-6029

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Application of Pathogen Genomics to Outbreak Investigation

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