Four European Salmonella Typhimurium datasets collected to develop WGS-based source attribution methods

Type Article
Date 2020-03
Language English
Author(s) Munck Nanna1, Leekitcharoenphon Pimlapas1, Litrup Eva2, Kaas Rolf1, Meinen Anika3, Guillier Laurent4, Tang Yue5, Malorny Burkhard6, Palma Federica4, Borowiak Maria6, Gourmelon MicheleORCID7, Simon Sandra8, Banerji Sangeeta8, Petrovska Liljana5, Dallman Timothy J.9, Hald Tine1
Affiliation(s) 1 : Research Group for Genomic Epidemiology, National Food Institute, Technical University of Denmark, Kgs. Lyngby, Denmark
2 : Foodborne Infections, Department of Bacteria, Parasites and Fungi, Statens Serum Institute, Copenhagen, Denmark
3 : Department for Infectious Disease Epidemiology, Robert Koch Institute, Berlin, Germany
4 : Université Paris Est, ANSES, Laboratory for Food Safety, F-94701, Maisons-Alfort, France
5 : Department of Bacteriology, Animal and Plant Health Agency, Weybridge, Surrey, UK
6 : Department of Biological Safety, German Federal Institute for Risk Assessment, Berlin, Germany
7 : Ifremer, Environment and Microbiology Laboratory, RBE, SGMM, Plouzané, France
8 : National Reference Center for Salmonella and other bacterial enteric pathogens, Robert Koch Institute, Wernigerode, Germany
9 : National Infections Service, Public Health England, London, UK
Source Scientific Data (2052-4463) (Springer Science and Business Media LLC), 2020-03 , Vol. 7 , N. 1 , P. 75 (12p.)
DOI 10.1038/s41597-020-0417-7
WOS© Times Cited 9

Zoonotic Salmonella causes millions of human salmonellosis infections worldwide each year. Information about the source of the bacteria guides risk managers on control and preventive strategies. Source attribution is the effort to quantify the number of sporadic human cases of a specific illness to specific sources and animal reservoirs. Source attribution methods for Salmonella have so far been based on traditional wet-lab typing methods. With the change to whole genome sequencing there is a need to develop new methods for source attribution based on sequencing data. Four European datasets collected in Denmark (DK), Germany (DE), the United Kingdom (UK) and France (FR) are presented in this descriptor. The datasets contain sequenced samples of Salmonella Typhimurium and its monophasic variants isolated from human, food, animal and the environment. The objective of the datasets was either to attribute the human salmonellosis cases to animal reservoirs or to investigate contamination of the environment by attributing the environmental isolates to different animal reservoirs.

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Munck Nanna, Leekitcharoenphon Pimlapas, Litrup Eva, Kaas Rolf, Meinen Anika, Guillier Laurent, Tang Yue, Malorny Burkhard, Palma Federica, Borowiak Maria, Gourmelon Michele, Simon Sandra, Banerji Sangeeta, Petrovska Liljana, Dallman Timothy J., Hald Tine (2020). Four European Salmonella Typhimurium datasets collected to develop WGS-based source attribution methods. Scientific Data, 7(1), 75 (12p.). Publisher's official version : , Open Access version :