Real-Time Whole-Genome Sequencing for Surveillance of<i>Listeria monocytogenes</i>, France

Alexandra Moura(Institut Necker Enfants Malades), Mathieu Tourdjman(Ministry of Agriculture and Agro Based Industry), Alexandre Leclercq(Université Paris Cité), Estelle Hamelin(Descartes (Belgium)), E. Laurent(Inserm), Nathalie Fredriksen(Inserm), Dieter Van Cauteren(Délégation Paris 5), Hélène Bracq‐Dieye(Institut Necker Enfants Malades), Pierre Thouvénot(Ministère de l'Agriculture et de la Souveraineté alimentaire), Guillaume Valès(Ministry of Agriculture and Agro Based Industry), Nathalie Tessaud‐Rita(Santé Publique France), Mylène M. Maury(Inserm), Andreea Alexandru(Institut Pasteur), Alexis Criscuolo(Délégation Paris 5), Emmanuel Quévillon(Institut Necker Enfants Malades), Marie-Pierre Donguy(Inserm), Vincent Enouf(Ministry of Agriculture and Agro Based Industry), Henriette de Valk(Ministère de l'Agriculture et de la Souveraineté alimentaire), Sylvain Brisse(Descartes (Belgium)), Marc Lecuit(Institut Necker Enfants Malades)
Emerging infectious diseases
June 23, 2017
10.3201/eid2309.170336
Cited by 163Open Access
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Abstract

During 2015-2016, we evaluated the performance of whole-genome sequencing (WGS) as a routine typing tool. Its added value for microbiological and epidemiologic surveillance of listeriosis was compared with that for pulsed-field gel electrophoresis (PFGE), the current standard method. A total of 2,743 Listeria monocytogenes isolates collected as part of routine surveillance were characterized in parallel by PFGE and core genome multilocus sequence typing (cgMLST) extracted from WGS. We investigated PFGE and cgMLST clusters containing human isolates. Discrimination of isolates was significantly higher by cgMLST than by PFGE (p<0.001). cgMLST discriminated unrelated isolates that shared identical PFGE profiles and phylogenetically closely related isolates with distinct PFGE profiles. This procedure also refined epidemiologic investigations to include only phylogenetically closely related isolates, improved source identification, and facilitated epidemiologic investigations, enabling identification of more outbreaks at earlier stages. WGS-based typing should replace PFGE as the primary typing method for L. monocytogenes.

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