LiSEQ – whole-genome sequencing of a cross-sectional survey of Listeria monocytogenes in ready-to-eat foods and human clinical cases in Europe

Anaïs Painset, Jonas T. Björkman, Kristoffer Kiil, Laurent Guillier, Jean-François Mariet, Benjamin Félix, Corinne Amar, Ovidiu Rotariu, Sophie Roussel, Francisco Perez-Reche, Sylvain Brisse, Alexandra Moura, Marc Lecuit, Ken Forbes, Norval Strachan, Kathie Grant, Eva Møller-Nielsen, Timothy J. Dallman (Corresponding Author)

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Abstract

We present the LiSEQ ( Listeria SEQuencing) project, funded by the European Food Safety Agency (EFSA) to compare Listeria monocytogenes isolates collected in the European Union from ready-to-eat foods, compartments along the food chain (e.g. food-producing animals, food-processing environments) and humans. In this article, we report the molecular characterization of a selection of this data set employing whole-genome sequencing analysis. We present an overview of the strain diversity observed in different sampled sources, and characterize the isolates based on their virulence and resistance profile. We integrate into our analysis the global L. monocytogenes genome collection described by Moura and colleagues in 2016 to assess the representativeness of the LiSEQ collection in the context of known L. monocytogenes strain diversity.
Original languageEnglish
Article number000257
Number of pages11
JournalMicrobial Genomics
Volume5
Issue number2
Early online date18 Feb 2019
DOIs
Publication statusPublished - Feb 2019

Bibliographical note

Funding information
This work was funded by EFSA, contract number C/EFSA/BIOCONTAM/2014/01-CT 1 on “Closing gaps for performing a risk assessment on Listeria monocytogenes in ready-to-eat (RTE) foods: activity 3, the comparison of isolates from different compartments along the food chain, and from humans using whole genome sequencing (WGS) analysis’, EFSA-Q-2014-00 026.

Acknowledgements
A. P., T. D. and K. G. are affiliated to the National Institute for Health Research – Health Protection Research Unit (NIHR HPRU) in Gastrointestinal Infections at University of Liverpool in partnership with Public Health England, in collaboration with the University of East Anglia, the University of Oxford and the Quadram Institute. A. P., T. D. and K. G. are based at Public Health England. The views expressed are those of the author(s) and not necessarily those of the NHS, the NIHR, the Department of Health or Public Health England.

Keywords

  • phylogeny
  • human
  • Listeria monocytogenes
  • whole-genome sequencing
  • food
  • genetic diversity
  • Human
  • Whole-genome sequencing
  • Genetic diversity
  • Phylogeny
  • Food
  • STRAINS
  • ALIGNMENT
  • RESISTANCE
  • SURVEILLANCE
  • RISK-ASSESSMENT

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