Outbreak of Pseudomonas aeruginosa Infections from a Contaminated Gastroscope Detected by Whole Genome Sequencing Surveillance
Abstract
Background
Traditional methods of outbreak investigations utilize reactive whole genome sequencing (WGS) to confirm or refute the outbreak. We have implemented WGS surveillance and a machine learning (ML) algorithm for the electronic health record (EHR) to retrospectively detect previously unidentified outbreaks and to determine the responsible transmission routes.
Methods
We performed WGS surveillance to identify and characterize clusters of genetically-related Pseudomonas aeruginosa infections during a 24-month period. ML of the EHR was used to identify potential transmission routes. A manual review of the EHR was performed by an infection preventionist to determine the most likely route and results were compared to the ML algorithm.
Results
We identified a cluster of 6 genetically related P. aeruginosa cases that occurred during a 7-month period. The ML algorithm identified gastroscopy as a potential transmission route for 4 of the 6 patients. Manual EHR review confirmed gastroscopy as the most likely route for 5 patients. This transmission route was confirmed by identification of a genetically-related P. aeruginosa incidentally cultured from a gastroscope used on 4 of the 5 patients. Three infections, 2 of which were blood stream infections, could have been prevented if the ML algorithm had been running in real-time.
Conclusions
WGS surveillance combined with a ML algorithm of the EHR identified a previously undetected outbreak of gastroscope-associated P. aeruginosa infections. These results underscore the value of WGS surveillance and ML of the EHR for enhancing outbreak detection in hospitals and preventing serious infections.
BibTeX
@article{Sundermann-2020-127173,author = {Alexander J. Sundermann and Jieshi Chen and James K. Miller and Melissa I. Saul and Kathleen A. Shutt and Marissa P. Griffith and Mustapha M. Mustapha and Chinelo Ezeonwuka and Kady Waggle and Vatsala Srinivasa and Praveen Kumar and A. William Pasculle and Ashley M. Ayres and Graham M. Snyder and Vaughn S. Cooper and Daria Van Tyne and Jane W. Marsh and Artur W. Dubrawski and Lee H. Harrison},
title = {Outbreak of Pseudomonas aeruginosa Infections from a Contaminated Gastroscope Detected by Whole Genome Sequencing Surveillance},
journal = {Clinical Infectious Diseases},
year = {2020},
month = {December},
}