Comparison of SNP-based subtyping workflows for bacterial isolates using WGS data, applied to Salmonella enterica serotype Typhimurium and serotype 1,4,[5],12:i:-

Assia Saltykova; Véronique Wuyts; Wesley Mattheus; Sophie Bertrand; Nancy H. C. Roosens; Kathleen Marchal; Sigrid C. J. De Keersmaecker

doi:10.1371/journal.pone.0192504

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Open Access

Peer-reviewed

Research Article

Comparison of SNP-based subtyping workflows for bacterial isolates using WGS data, applied to Salmonella enterica serotype Typhimurium and serotype 1,4,[5],12:i:-

Assia Saltykova,

Roles Conceptualization, Data curation, Formal analysis, Investigation, Methodology, Visualization, Writing – original draft

Affiliations Platform Biotechnology and Molecular Biology, Scientific Institute of Public Health, Brussels, Belgium, Department of Information Technology, IDLab, Ghent University, IMEC, Ghent, Belgium
⨯
Véronique Wuyts,

Roles Conceptualization, Investigation, Methodology, Resources

Affiliation Platform Biotechnology and Molecular Biology, Scientific Institute of Public Health, Brussels, Belgium
⨯
Wesley Mattheus,

Roles Investigation, Methodology, Resources, Writing – review & editing

Affiliation Bacterial Diseases Division, Communicable and Infectious Diseases, Scientific Institute of Public Health, Brussels, Belgium
⨯
Sophie Bertrand,

Roles Investigation, Methodology, Resources

Affiliation Bacterial Diseases Division, Communicable and Infectious Diseases, Scientific Institute of Public Health, Brussels, Belgium
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Nancy H. C. Roosens,

Roles Conceptualization, Methodology, Writing – review & editing

Affiliation Platform Biotechnology and Molecular Biology, Scientific Institute of Public Health, Brussels, Belgium
⨯
Kathleen Marchal ,

Roles Conceptualization, Investigation, Methodology, Resources, Writing – review & editing

* E-mail: Sigrid.dekeersmaecker@wiv-isp.be (SDK); Kathleen.Marchal@ugent.be (KM)

Affiliations Department of Information Technology, IDLab, Ghent University, IMEC, Ghent, Belgium, Department of Plant Biotechnology and Bioinformatics, Ghent University, VIB, Ghent, Belgium, University of Pretoria, Pretoria, South Africa
⨯
Sigrid C. J. De Keersmaecker

Roles Conceptualization, Funding acquisition, Investigation, Methodology, Project administration, Supervision, Writing – review & editing

* E-mail: Sigrid.dekeersmaecker@wiv-isp.be (SDK); Kathleen.Marchal@ugent.be (KM)

Affiliation Platform Biotechnology and Molecular Biology, Scientific Institute of Public Health, Brussels, Belgium

http://orcid.org/0000-0003-4198-4133

⨯

Comparison of SNP-based subtyping workflows for bacterial isolates using WGS data, applied to Salmonella enterica serotype Typhimurium and serotype 1,4,[5],12:i:-

Assia Saltykova,
Véronique Wuyts,
Wesley Mattheus,
Sophie Bertrand,
Nancy H. C. Roosens,
Kathleen Marchal,
Sigrid C. J. De Keersmaecker

Published: February 6, 2018
https://doi.org/10.1371/journal.pone.0192504

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Single nucleotide polymorphisms
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Genomics
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Phylogenetic analysis
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Salmonella typhimurium
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Salmonella enterica
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