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2018-08-16Zeitschriftenartikel DOI: 10.25646/6093
Retrospective validation of whole genome sequencing-enhanced surveillance of listeriosis in Europe, 2010 to 2015
dc.contributor.authorVan Walle, Ivo
dc.contributor.authorTorgny Björkman, Jonas
dc.contributor.authorCormican, Martin
dc.contributor.authorDallman, Timothy
dc.contributor.authorMossong, Joël
dc.contributor.authorMoura, Alexandra
dc.contributor.authorPietzka, Ariane
dc.contributor.authorRuppitsch, Werner
dc.contributor.authorTakkinen, Johanna
dc.contributor.authorEuropean Listeria WGS typing group
dc.date.accessioned2019-04-24T08:52:44Z
dc.date.available2019-04-24T08:52:44Z
dc.date.issued2018-08-16none
dc.identifier.other10.2807/1560-7917.ES.2018.23.33.1700798
dc.identifier.urihttp://edoc.rki.de/176904/6124
dc.description.abstractBackground and aim: The trend in reported case counts of invasive Listeria monocytogenes (Lm), a potentially severe food-borne disease, has been increasing since 2008. In 2015, 2,224 cases were reported in the European Union/European Economic Area (EU/EEA). We aimed to validate the microbiological and epidemiological aspects of an envisaged EU/EEA-wide surveillance system enhanced by routine whole genome sequencing (WGS). Methods: WGS and core genome multilocus sequence typing (cgMLST) were performed on isolates from 2,726 cases from 27 EU/EEA countries from 2010–15. Results: Quality controls for contamination, mixed Lm cultures and sequence quality classified nearly all isolates with a minimum average coverage of the genome of 55x as acceptable for analysis. Assessment of the cgMLST variation between six different pipelines revealed slightly less variation associated with assembly-based analysis compared to reads-based analysis. Epidemiological concordance, based on 152 isolates from 19 confirmed outbreaks and a cluster cutoff of seven allelic differences, was good (sensitivity > 95% for two cgMLST schemes of 1,748 and 1,701 loci each; PPV 58‒68%). The proportion of sporadic cases was slightly below 50%. Of remaining isolates, around one third were in clusters involving more than one country, often spanning several years. Detection of multi-country clusters was on average several months earlier when pooling the data at EU/EEA level, compared with first detection at national level. Conclusions: These findings provide a good basis for comprehensive EU/EEA-wide, WGS-enhanced surveillance of listeriosis. Time limits should not be used for hypothesis generation during outbreak investigations, but should be for analytical studies.eng
dc.language.isoengnone
dc.publisherRobert Koch-Institut
dc.rights(CC BY 3.0 DE) Namensnennung 3.0 Deutschlandger
dc.rights.urihttp://creativecommons.org/licenses/by/3.0/de/
dc.subjectListeriaeng
dc.subjectWGSeng
dc.subjectepidemiologyeng
dc.subjectfood-borne infectionseng
dc.subjectlaboratory surveillanceeng
dc.subjectpublic health policyeng
dc.subjectwhole genome sequencingeng
dc.subject.ddc610 Medizin und Gesundheitnone
dc.titleRetrospective validation of whole genome sequencing-enhanced surveillance of listeriosis in Europe, 2010 to 2015none
dc.typearticle
dc.identifier.urnurn:nbn:de:kobv:0257-176904/6124-0
dc.identifier.doihttp://dx.doi.org/10.25646/6093
dc.type.versionpublishedVersionnone
local.edoc.container-titleEurosurveillancenone
local.edoc.type-nameZeitschriftenartikel
local.edoc.container-typeperiodical
local.edoc.container-type-nameZeitschrift
local.edoc.container-urlhttps://www.eurosurveillance.org/content/10.2807/1560-7917.ES.2018.23.33.1700798#html_fulltextnone
local.edoc.container-publisher-nameInstitut de Veille Sanitairenone
local.edoc.container-volume23none
local.edoc.container-issue13none
local.edoc.container-reportyear2018none
local.edoc.container-year2018none
local.edoc.container-firstpage1none
local.edoc.container-lastpage11none
dc.description.versionPeer Reviewednone

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