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)

Research output: Contribution to journalArticle

1 Citation (Scopus)
6 Downloads (Pure)

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

Fingerprint

Listeria
Listeria monocytogenes
Cross-Sectional Studies
Genome
Food
Food Handling
Food Chain
Food Safety
European Union
Virulence

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

ASJC Scopus subject areas

  • Medicine(all)

Cite this

LiSEQ – whole-genome sequencing of a cross-sectional survey of Listeria monocytogenes in ready-to-eat foods and human clinical cases in Europe. / Painset, Anaïs; Björkman, Jonas T.; Kiil, Kristoffer; Guillier, Laurent; Mariet, Jean-François; Félix, Benjamin; Amar, Corinne; Rotariu, Ovidiu; Roussel, Sophie; Perez-Reche, Francisco; Brisse, Sylvain; Moura, Alexandra; Lecuit, Marc; Forbes, Ken; Strachan, Norval; Grant, Kathie; Møller-Nielsen, Eva; Dallman, Timothy J. (Corresponding Author).

In: Microbial Genomics, Vol. 5, No. 2, 000257, 02.2019.

Research output: Contribution to journalArticle

Painset, A, Björkman, JT, Kiil, K, Guillier, L, Mariet, J-F, Félix, B, Amar, C, Rotariu, O, Roussel, S, Perez-Reche, F, Brisse, S, Moura, A, Lecuit, M, Forbes, K, Strachan, N, Grant, K, Møller-Nielsen, E & Dallman, TJ 2019, 'LiSEQ – whole-genome sequencing of a cross-sectional survey of Listeria monocytogenes in ready-to-eat foods and human clinical cases in Europe', Microbial Genomics, vol. 5, no. 2, 000257. https://doi.org/10.1099/mgen.0.000257
Painset, Anaïs ; Björkman, Jonas T. ; Kiil, Kristoffer ; Guillier, Laurent ; Mariet, Jean-François ; Félix, Benjamin ; Amar, Corinne ; Rotariu, Ovidiu ; Roussel, Sophie ; Perez-Reche, Francisco ; Brisse, Sylvain ; Moura, Alexandra ; Lecuit, Marc ; Forbes, Ken ; Strachan, Norval ; Grant, Kathie ; Møller-Nielsen, Eva ; Dallman, Timothy J. / LiSEQ – whole-genome sequencing of a cross-sectional survey of Listeria monocytogenes in ready-to-eat foods and human clinical cases in Europe. In: Microbial Genomics. 2019 ; Vol. 5, No. 2.
@article{4e5079d3fbc14bd38757807ae7522bc7,
title = "LiSEQ – whole-genome sequencing of a cross-sectional survey of Listeria monocytogenes in ready-to-eat foods and human clinical cases in Europe",
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.",
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",
author = "Ana{\"i}s Painset and Bj{\"o}rkman, {Jonas T.} and Kristoffer Kiil and Laurent Guillier and Jean-Fran{\cc}ois Mariet and Benjamin F{\'e}lix and Corinne Amar and Ovidiu Rotariu and Sophie Roussel and Francisco Perez-Reche and Sylvain Brisse and Alexandra Moura and Marc Lecuit and Ken Forbes and Norval Strachan and Kathie Grant and Eva M{\o}ller-Nielsen and Dallman, {Timothy J.}",
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.",
year = "2019",
month = "2",
doi = "10.1099/mgen.0.000257",
language = "English",
volume = "5",
journal = "Microbial Genomics",
issn = "2057-5858",
publisher = "Microbiology Society",
number = "2",

}

TY - JOUR

T1 - LiSEQ – whole-genome sequencing of a cross-sectional survey of Listeria monocytogenes in ready-to-eat foods and human clinical cases in Europe

AU - Painset, Anaïs

AU - Björkman, Jonas T.

AU - Kiil, Kristoffer

AU - Guillier, Laurent

AU - Mariet, Jean-François

AU - Félix, Benjamin

AU - Amar, Corinne

AU - Rotariu, Ovidiu

AU - Roussel, Sophie

AU - Perez-Reche, Francisco

AU - Brisse, Sylvain

AU - Moura, Alexandra

AU - Lecuit, Marc

AU - Forbes, Ken

AU - Strachan, Norval

AU - Grant, Kathie

AU - Møller-Nielsen, Eva

AU - Dallman, Timothy J.

N1 - 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.

PY - 2019/2

Y1 - 2019/2

N2 - 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.

AB - 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.

KW - phylogeny

KW - human

KW - Listeria monocytogenes

KW - whole-genome sequencing

KW - food

KW - genetic diversity

KW - Human

KW - Whole-genome sequencing

KW - Genetic diversity

KW - Phylogeny

KW - Food

KW - STRAINS

KW - ALIGNMENT

KW - RESISTANCE

KW - SURVEILLANCE

KW - RISK-ASSESSMENT

UR - http://www.scopus.com/inward/record.url?scp=85062427972&partnerID=8YFLogxK

UR - http://www.mendeley.com/research/liseq-wholegenome-sequencing-crosssectional-survey-listeria-monocytogenes-readytoeat-foods-human-cli

U2 - 10.1099/mgen.0.000257

DO - 10.1099/mgen.0.000257

M3 - Article

VL - 5

JO - Microbial Genomics

JF - Microbial Genomics

SN - 2057-5858

IS - 2

M1 - 000257

ER -