Ghent University Academic Bibliography

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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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Towards real-time and affordable strain-level metagenomics-based foodborne outbreak investigations using Oxford nanopore sequencing technologies

Florence Buytaers, Assia Saltykova, Sarah Denayer, Bavo Verhaegen (UGent) , Kevin Vanneste (UGent) , Nancy H. C. Roosens, Denis Pierard, Kathleen Marchal (UGent) and Sigrid C. J. De Keersmaecker

(2021) FRONTIERS IN MICROBIOLOGY. 12.
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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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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).
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Application of a strain- level shotgun metagenomics approach on food samples : resolution of the source of a Salmonella food-borne outbreak

Florence Buytaers, Assia Saltykova, Wesley Mattheus, Valeska Laisnez, Bavo Verhaegen, Nancy H. C. Roosens, Kevin Vanneste (UGent) , Naiima Hammami, Brigitte Pochet, Vera Cantaert, et al.

(2021) MICROBIAL GENOMICS. 7(4).
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Strain-level metagenomic data analysis of enriched in vitro and in silico spiked food samples : paving the way towards a culture-free foodborne outbreak investigation using STEC as a case study

Assia Saltykova, Florence Buytaers, Sarah Denayer, Bavo Verhaegen, Denis Piérard, Nancy H. C. Roosens, Kathleen Marchal (UGent) and Sigrid C. J. De Keersmaecker

(2020) INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES. 21(16).
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Strategy for the identification of micro-organisms producing food and feed products : bacteria producing food enzymes as study case

Marie Deckers, Kevin Vanneste, Raf Winand, Sigrid C. J. De Keersmaecker, Sarah Denayer, Marc Heyndrickx (UGent) , Dieter Deforce (UGent) , Marie-Alice Fraiture and Nancy H. C. Roosens

(2020) FOOD CHEMISTRY. 305.
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Impact of DNA extraction on whole genome sequencing analysis for characterization and relatedness of Shiga toxin-producing Escherichia coli isolates

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

(2020) SCIENTIFIC REPORTS. 10(1).
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A practical method to implement strain-level metagenomics-based foodborne outbreak investigation and source tracking in routine

Florence Buytaers, Assia Saltykova, Sarah Denayer, Bavo Verhaegen, Kevin Vanneste, Nancy H. C. Roosens, Denis Piérard, Kathleen Marchal (UGent) and Sigrid C. J. De Keersmaecker

(2020) MICROORGANISMS. 8(8).
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The benefits of whole genome sequencing for foodborne outbreak investigation from the perspective of a national reference laboratory in a smaller country

Stéphanie Nouws (UGent) , Bert Bogaerts, Bavo Verhaegen, Sarah Denayer, Florence Crombé, Klara De Rauw, Denis Piérard, Kathleen Marchal (UGent) , Kevin Vanneste, Nancy H. C. Roosens, et al.

(2020) FOODS. 9(8).

Academic Bibliography

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

Towards real-time and affordable strain-level metagenomics-based foodborne outbreak investigations using Oxford nanopore sequencing technologies

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

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

Application of a strain- level shotgun metagenomics approach on food samples : resolution of the source of a Salmonella food-borne outbreak

Strain-level metagenomic data analysis of enriched in vitro and in silico spiked food samples : paving the way towards a culture-free foodborne outbreak investigation using STEC as a case study

Strategy for the identification of micro-organisms producing food and feed products : bacteria producing food enzymes as study case

Impact of DNA extraction on whole genome sequencing analysis for characterization and relatedness of Shiga toxin-producing Escherichia coli isolates

A practical method to implement strain-level metagenomics-based foodborne outbreak investigation and source tracking in routine

The benefits of whole genome sequencing for foodborne outbreak investigation from the perspective of a national reference laboratory in a smaller country

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