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- Title
Rapid Whole-Genome Sequencing for Surveillance of Salmonella enterica Serovar Enteritidis.
- Authors
den Bakker, Henk C.; Allard, Marc W.; Bopp, Dianna; Brown, Eric W.; Fontana, John; Iqbal, Zamin; Kinney, Aristea; Limberger, Ronald; Musser, Kimberlee A.; Shudt, Matthew; Strain, Errol; Wiedmann, Martin; Wolfgang, William J.
- Abstract
For Salmonella enterica serovar Enteritidis, 85% of isolates can be classified into 5 pulsed-field gel electrophoresis (PFGE) types. However, PFGE has limited discriminatory power for outbreak detection. Although whole-genome sequencing has been found to improve discrimination of outbreak clusters, whether this procedure can be used in real-time in a public health laboratory is not known. Therefore, we conducted a retrospective and prospective analysis. The retrospective study investigated isolates from 1 confirmed outbreak. Additional cases could be attributed to the outbreak strain on the basis of whole-genome data. The prospective study included 58 isolates obtained in 2012, including isolates from 1 epidemiologically defined outbreak. Whole-genome sequencing identified additional isolates that could be attributed to the outbreak, but which differed from the outbreak-associated PFGE type. Additional putative outbreak clusters were detected in the retrospective and prospective analyses. This study demonstrates the practicality of implementing this approach for outbreak surveillance in a state public health laboratory.
- Subjects
SALMONELLA enterica serovar enteritidis; PULSED-field gel electrophoresis; SALMONELLA enterica; GENOMICS; EPIDEMIC research
- Publication
Emerging Infectious Diseases, 2014, Vol 20, Issue 8, p1306
- ISSN
1080-6040
- Publication type
Article
- DOI
10.3201/eid2008.131399