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J Infect Dis. 2016 Feb 15;213(4):502-8. doi: 10.1093/infdis/jiv297. Epub 2015 May 20.

Tracing Origins of the Salmonella Bareilly Strain Causing a Food-borne Outbreak in the United States.

Author information

1
Division of Microbiology, Office of Regulatory Science, Center for Food Safety and Nutrition Department of Nutrition & Food Science and Joint Institute for Food Safety & Applied Nutrition, University of Maryland, College Park.
2
Division of Public Health and Biostatistics, Office of Food Defense, Communication and Emergency Response, Center for Food Safety and Nutrition, US Food and Drug Administration, College Park.
3
Division of Microbiology, Office of Regulatory Science, Center for Food Safety and Nutrition.
4
Department of Bioinformatics and Genomics, University North Carolina at Charlotte.
5
Department of Biomedical Informatics, Ohio State University, Columbus.
6
New York State Department of Health, Wadsworth Center, Albany.
7
Maryland Department of Health and Mental Hygiene, Baltimore.
8
Department of Nutrition & Food Science and Joint Institute for Food Safety & Applied Nutrition, University of Maryland, College Park.

Abstract

BACKGROUND:

Using a novel combination of whole-genome sequencing (WGS) analysis and geographic metadata, we traced the origins of Salmonella Bareilly isolates collected in 2012 during a widespread food-borne outbreak in the United States associated with scraped tuna imported from India.

METHODS:

Using next-generation sequencing, we sequenced the complete genome of 100 Salmonella Bareilly isolates obtained from patients who consumed contaminated product, from natural sources, and from unrelated historically and geographically disparate foods. Pathogen genomes were linked to geography by projecting the phylogeny on a virtual globe and produced a transmission network.

RESULTS:

Phylogenetic analysis of WGS data revealed a common origin for outbreak strains, indicating that patients in Maryland and New York were infected from sources originating at a facility in India.

CONCLUSIONS:

These data represent the first report fully integrating WGS analysis with geographic mapping and a novel use of transmission networks. Results showed that WGS vastly improves our ability to delimit the scope and source of bacterial food-borne contamination events. Furthermore, these findings reinforce the extraordinary utility that WGS brings to global outbreak investigation as a greatly enhanced approach to protecting the human food supply chain as well as public health in general.

KEYWORDS:

geographic information systems; next generation sequencing; salmonellosis; single nucleotide polymorphism; traceback

PMID:
25995194
DOI:
10.1093/infdis/jiv297
[Indexed for MEDLINE]

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