Journal
EMERGING INFECTIOUS DISEASES
Volume 23, Issue 9, Pages 1462-1470Publisher
CENTERS DISEASE CONTROL & PREVENTION
DOI: 10.3201/eid2309.170336
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Funding
- Institut Pasteur
- Institut National de la Sante et de la Recherche Medicale, Sante Publique France
- Investissement d'Avenir Program, Laboratoire d'Excellence Integrative Biology of Emerging Infectious Diseases of French Government [ANR-10-LABX-62-IBEID]
- European Research Council
- Swiss National Science Foundation (Project SINERGIA) [CRSII3_147692]
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During 2015-2016, we evaluated the performance of wholegenome 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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