Publication detail

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

BEZDÍČEK, M. HANSLIKOVA, J. NYKRÝNOVÁ, M. DUFKOVÁ, K. KOCMANOVÁ, I. KUBÁČKOVÁ, P. MAYER, J. LENGEROVÁ, M.

Original Title

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

Type

journal article in Web of Science

Language

English

Original Abstract

The 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.

Keywords

Enterococcus faesium; multilocus sequence typing; clonal complex; epidemiology; whole genome sequenging

Authors

BEZDÍČEK, M.; HANSLIKOVA, J.; NYKRÝNOVÁ, M.; DUFKOVÁ, K.; KOCMANOVÁ, I.; KUBÁČKOVÁ, P.; MAYER, J.; LENGEROVÁ, M.

Released

12. 6. 2023

Publisher

American Society for Microbiology

ISBN

2165-0497

Periodical

Microbiology spectrum

Year of study

11

Number

4

State

United States of America

Pages from

1

Pages to

9

Pages count

9

URL

https://journals.asm.org/doi/10.1128/spectrum.05107-22

Full text in the Digital Library

http://hdl.handle.net/11012/244971

BibTex

@article{BUT183746,
  author="Matěj {Bezdíček} and Jana {Hanslikova} and Markéta {Nykrýnová} and Kristýna {Dufková} and Iva {Kocmanová} and Petra {Kubáčková} and Jiří {Mayer} and Martina {Lengerová}",
  title="New Multilocus Sequence Typing Scheme for Enterococcus faecium Based on Whole Genome Sequencing Data",
  journal="Microbiology spectrum",
  year="2023",
  volume="11",
  number="4",
  pages="1--9",
  doi="10.1128/spectrum.05107-22",
  issn="2165-0497",
  url="https://journals.asm.org/doi/10.1128/spectrum.05107-22"
}