Bert Bogaerts

Journal Article
A1
open access

Transforming Shiga toxin-producing Escherichia coli surveillance through whole genome sequencing in food safety practices

Stéphanie Nouws (UGent) , Bavo Verhaegen (UGent) , Sarah Denayer, Florence Crombé (UGent) , Denis Piérard (UGent) , Bert Bogaerts, Kevin Vanneste (UGent) , Kathleen Marchal (UGent) , Nancy H. C. Roosens and Sigrid C. J. De Keersmaecker

(2023) FRONTIERS IN MICROBIOLOGY. 14.

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Journal Article
A1
open access

Characterization of genetically modified microorganisms using short- and long-read whole-genome sequencing reveals contaminations of related origin in multiple commercial food enzyme products

Jolien D'aes, Marie-Alice Fraiture, Bert Bogaerts, Sigrid C. J. De Keersmaecker, Nancy H. C. Roosens and Kevin Vanneste

(2021) FOODS. 10(11).

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PhD Thesis
open access

Development of a data-intensive centralized system for surveillance and outbreak investigation of bacterial pathogens using whole-genome sequencing

Bert Bogaerts

(2021)

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Journal Article
A1
open access

Phylogenomic investigation of increasing fluoroquinolone resistance among Belgian cases of shigellosis between 2013 and 2018 indicates both travel-related imports and domestic circulation

Bert Bogaerts, Raf Winand, Julien Van Braekel, Wesley Mattheus, Sigrid C. J. De Keersmaecker, Nancy H. C. Roosens, Kathleen Marchal (UGent) , Kevin Vanneste and Pieter-Jan Ceyssens

(2021) MICROORGANISMS. 9(4).

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Journal Article
A1
open access

Whole-genome sequencing-based antimicrobial resistance characterization and phylogenomic investigation of 19 multidrug-resistant and extended-spectrum beta-lactamase-positive escherichia coli strains collected from hospital patients in Benin in 2019

Carine Laurence Yehouenou, Bert Bogaerts, Sigrid C. J. De Keersmaecker, Nancy H. C. Roosens, Kathleen Marchal (UGent) , Edmond Tchiakpe, Dissou Affolabi, Anne Simon, Francis Moise Dossou, Kevin Vanneste (UGent) , et al.

(2021) FRONTIERS IN MICROBIOLOGY. 12.

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Journal Article
A1
open access

Evaluation of WGS performance for bacterial pathogen characterization with the Illumina technology optimized for time-critical situations

Bert Bogaerts, Raf Winand, Julien Van Braekel, Stefan Hoffman, Nancy H. C. Roosens, Sigrid C. J. De Keersmaecker, Kathleen Marchal (UGent) and Kevin Vanneste (UGent)

(2021) MICROBIAL GENOMICS. 7(11).

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Journal Article
A1
open access

Whole-genome-based phylogenomic analysis of the Belgian 2016–2017 influenza A(H3N2) outbreak season allows improved surveillance

Laura Van Poelvoorde (UGent) , Bert Bogaerts, Qiang Fu, Sigrid C. J. De Keersmaecker, Isabelle Thomas, Nina Van Goethem, Steven Van Gucht, Raf Winand, Xavier Saelens (UGent) , Nancy Roosens, et al.

(2021) MICROBIAL GENOMICS. 7(9).

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Whole genome sequencing provides an added value to the investigation of staphylococcal food poisoning outbreaks

Stéphanie Nouws (UGent) , Bert Bogaerts, Bavo Verhaegen (UGent) , Sarah Denayer, Lasse Laeremans, Kathleen Marchal (UGent) , Nancy H. C. Roosens, Kevin Vanneste (UGent) and Sigrid C. J. De Keersmaecker

(2021) FRONTIERS IN MICROBIOLOGY. 12.

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Journal Article
A1
open access

A bioinformatics whole-genome sequencing workflow for clinical Mycobacterium tuberculosis complex isolate analysis, validated using a reference collection extensively characterized with conventional methods and in silico approaches

Bert Bogaerts, Thomas Delcourt, Karine Soetaert, Samira Boarbi, Pieter-Jan Ceyssens, Raf Winand, Julien Van Braekel, Sigrid C. J. De Keersmaecker, Nancy H. C. Roosens, Kathleen Marchal (UGent) , et al.

(2021) JOURNAL OF CLINICAL MICROBIOLOGY. 59(6).

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Journal Article
A1
open access

Validation strategy of a bioinformatics whole genome sequencing workflow for Shiga toxin-producing Escherichia coli using a reference collection extensively characterized with conventional methods

Bert Bogaerts, Stéphanie Nouws (UGent) , Bavo Verhaegen, Sarah Denayer, Julien Van Braekel, Raf Winand, Qiang Fu, Florence Crombé, Denis Piérard, Kathleen Marchal (UGent) , et al.

(2021) MICROBIAL GENOMICS. 7(3).

Academic Bibliography

Bert Bogaerts

Transforming Shiga toxin-producing Escherichia coli surveillance through whole genome sequencing in food safety practices

Characterization of genetically modified microorganisms using short- and long-read whole-genome sequencing reveals contaminations of related origin in multiple commercial food enzyme products

Development of a data-intensive centralized system for surveillance and outbreak investigation of bacterial pathogens using whole-genome sequencing

Phylogenomic investigation of increasing fluoroquinolone resistance among Belgian cases of shigellosis between 2013 and 2018 indicates both travel-related imports and domestic circulation

Whole-genome sequencing-based antimicrobial resistance characterization and phylogenomic investigation of 19 multidrug-resistant and extended-spectrum beta-lactamase-positive escherichia coli strains collected from hospital patients in Benin in 2019

Evaluation of WGS performance for bacterial pathogen characterization with the Illumina technology optimized for time-critical situations

Whole-genome-based phylogenomic analysis of the Belgian 2016–2017 influenza A(H3N2) outbreak season allows improved surveillance

Whole genome sequencing provides an added value to the investigation of staphylococcal food poisoning outbreaks

A bioinformatics whole-genome sequencing workflow for clinical Mycobacterium tuberculosis complex isolate analysis, validated using a reference collection extensively characterized with conventional methods and in silico approaches

Validation strategy of a bioinformatics whole genome sequencing workflow for Shiga toxin-producing Escherichia coli using a reference collection extensively characterized with conventional methods

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