New Multilocus Sequence Typing Scheme for Enterococcus faecium Based on Whole Genome Sequencing Data

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dc.contributor.authorBezdíček, Matějcs
dc.contributor.authorHanslikova, Janacs
dc.contributor.authorJakubíčková, Markétacs
dc.contributor.authorDufková, Kristýnacs
dc.contributor.authorKocmanová, Ivacs
dc.contributor.authorKubáčková, Petracs
dc.contributor.authorMayer, Jiřícs
dc.contributor.authorLengerová, Martinacs
dc.coverage.issue4cs
dc.coverage.volume11cs
dc.date.issued2023-06-12cs
dc.description.abstractThe MLST scheme currently used for Enterococcus faecium typing was designed in 2002 and is based on putative gene functions and Enterococcus faecalis gene sequences available at that time. As a result, the original MLST scheme does not correspond to the real genetic relatedness of E. faecium strains and often clusters genetically distant strains to the same sequence types (ST). Nevertheless, typing has a significant impact on the subsequent epidemiological conclusions and introduction of appropriate epidemiological measures, thus it is crucial to use a more accurate MLST scheme. Based on the genome analysis of 1,843 E. faecium isolates, a new scheme, consisting of 8 highly discriminative loci, was created in this study. These strains were divided into 421 STs using the new MLST scheme, as opposed to 223 STs assigned by the original MLST scheme. The proposed MLST has a discriminatory power of D=0.983 (CI95% 0.981 to 0.984), compared to the original scheme’s D=0.919 (CI95% 0.911 to 0.927). Moreover, we identified new clonal complexes with our newly designed MLST scheme. The scheme proposed here is available within the PubMLST database. Although whole genome sequencing availability has increased rapidly, MLST remains an integral part of clinical epidemiology, mainly due to its high standardization and excellent robustness. In this study, we proposed and validated a new MLST scheme for E. faecium, which is based on genome-wide data and thus reflects the tested isolates’ more accurate genetic similarity.en
dc.formattextcs
dc.format.extent1-9cs
dc.format.mimetypeapplication/pdfcs
dc.identifier.citationMicrobiology spectrum. 2023, vol. 11, issue 4, p. 1-9.en
dc.identifier.doi10.1128/spectrum.05107-22cs
dc.identifier.issn2165-0497cs
dc.identifier.orcid0000-0002-0205-6935cs
dc.identifier.other183746cs
dc.identifier.researcheridR-3181-2018cs
dc.identifier.scopus57202469794cs
dc.identifier.urihttp://hdl.handle.net/11012/244971
dc.language.isoencs
dc.publisherAmerican Society for Microbiologycs
dc.relation.ispartofMicrobiology spectrumcs
dc.relation.urihttps://journals.asm.org/doi/10.1128/spectrum.05107-22cs
dc.rightsCreative Commons Attribution 4.0 Internationalcs
dc.rights.accessopenAccesscs
dc.rights.sherpahttp://www.sherpa.ac.uk/romeo/issn/2165-0497/cs
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/cs
dc.subjectEnterococcus faesiumen
dc.subjectmultilocus sequence typingen
dc.subjectclonal complexen
dc.subjectepidemiologyen
dc.subjectwhole genome sequengingen
dc.titleNew Multilocus Sequence Typing Scheme for Enterococcus faecium Based on Whole Genome Sequencing Dataen
dc.type.driverarticleen
dc.type.statusPeer-revieweden
dc.type.versionpublishedVersionen
sync.item.dbidVAV-183746en
sync.item.dbtypeVAVen
sync.item.insts2025.02.03 15:39:58en
sync.item.modts2025.01.17 16:44:52en
thesis.grantorVysoké učení technické v Brně. Fakulta elektrotechniky a komunikačních technologií. Ústav biomedicínského inženýrstvícs
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