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 (UGent) , 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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Time series modelling for wastewater-based epidemiology of COVID-19 : a nationwide study in 40 wastewater treatment plants of Belgium, February 2021 to June 2022

Xander Bertels (UGent) , Sven Hanoteaux, Raphael Janssens, Hadrien Maloux, Bavo Verhaegen, Peter Delputte, Tim Boogaerts, Alexander L.N. van Nuijs, Delphine Brogna, Catherine Linard, et al.

(2023) SCIENCE OF THE TOTAL ENVIRONMENT. 899.
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Metagenomics to detect and characterize viruses in food samples at genome level? Lessons learnt from a norovirus study

Florence Buytaers (UGent) , Bavo Verhaegen (UGent) , Mathieu Gand, Jolien D'aes, Kevin Vanneste (UGent) , Nancy H. C. Roosens, Kathleen Marchal (UGent) , Sarah Denayer and Sigrid C. J. De Keersmaecker

(2022) FOODS. 11(21).
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Towards real-time and affordable strain-level metagenomics-based foodborne outbreak investigations using Oxford nanopore sequencing technologies

Florence Buytaers (UGent) , Assia Saltykova (UGent) , 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 (UGent) , 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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Application of a strain- level shotgun metagenomics approach on food samples : resolution of the source of a Salmonella food-borne outbreak

Florence Buytaers (UGent) , Assia Saltykova (UGent) , 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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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 (UGent) , 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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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 (UGent) , Florence Buytaers (UGent) , 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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First detection of a plasmid located carbapenem resistant bla(VIM-1) gene in E. coli isolated from meat products at retail in Belgium in 2015

Cristina Garcia-Graells, Bas Berbers, Bavo Verhaegen, Kevin Vanneste (UGent) , Kathleen Marchal (UGent) , Nancy H. C. Roosens, Nadine Botteldoorn and Sigrid C. J. De Keersmaecker

(2020) INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY. 324.
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Molecular study of toxoplasma Gondii isolates originating from humans and organic pigs in Belgium

Ignacio Gisbert Algaba, Bavo Verhaegen, Jean Benjamin Murat, Wim Coucke, Aurélien Mercier, Eric Cox (UGent) , Pierre Dorny (UGent) , Katelijne Dierick and Stephane De Craeye

(2020) FOODBORNE PATHOGENS AND DISEASE. 17(5). p.316-321

Academic Bibliography

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

Time series modelling for wastewater-based epidemiology of COVID-19 : a nationwide study in 40 wastewater treatment plants of Belgium, February 2021 to June 2022

Metagenomics to detect and characterize viruses in food samples at genome level? Lessons learnt from a norovirus study

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

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

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

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

First detection of a plasmid located carbapenem resistant bla(VIM-1) gene in E. coli isolated from meat products at retail in Belgium in 2015

Molecular study of toxoplasma Gondii isolates originating from humans and organic pigs in Belgium

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