Ghent University Academic Bibliography

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Using a combination of short- and long-read sequencing to investigate the diversity in plasmid- and chromosomally encoded extended-spectrum beta-lactamases (ESBLs) in clinical Shigella and Salmonella isolates in Belgium

Johannes Berbers (UGent) , Kevin Vanneste, Nancy H. C. J. Roosens, Kathleen Marchal (UGent) , Pieter-Jan Ceyssens and Sigrid C. J. De Keersmaecker

(2023) MICROBIAL GENOMICS. 9(1).
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Retrospective surveillance of viable Bacillus cereus group contaminations in commercial food and feed vitamin B2 products sold on the Belgian market using whole-genome sequencing

Bert Bogaerts, Marie-Alice Fraiture, Astrid Huwaert, Tom Van Nieuwenhuysen, Bram Jacobs (UGent) , Koenraad Van Hoorde, Sigrid C. J. De Keersmaecker, Nancy H. C. Roosens and Kevin Vanneste

(2023) FRONTIERS IN MICROBIOLOGY. 14.
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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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Whole-genome sequence approach and phylogenomic stratification improve the association analysis of mutations with patient data in influenza surveillance

Laura Van Poelvoorde (UGent) , Kevin Vanneste, Sigrid C. J. De Keersmaecker, Isabelle Thomas, Nina Van Goethem, Steven Van Gucht, Xavier Saelens (UGent) and Nancy H. C. Roosens

(2022) FRONTIERS IN MICROBIOLOGY. 13.
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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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A general approach to identify low-frequency variants within influenza samples collected during routine surveillance

Laura Van Poelvoorde (UGent) , Thomas Delcourt, Marnik Vuylsteke (UGent) , Sigrid C. J. De Keersmaecker, Isabelle Thomas, Steven Van Gucht, Xavier Saelens (UGent) , Nancy Roosens and Kevin Vanneste

(2022) MICROBIAL GENOMICS. 8(9).
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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 (UGent) , Sigrid C. J. De Keersmaecker, Nancy H. C. Roosens and Kevin Vanneste

(2021) FOODS. 10(11).
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Strategy and performance evaluation of low-frequency variant calling for SARS-CoV-2 using targeted deep Illumina sequencing

Laura Van Poelvoorde (UGent) , Thomas Delcourt, Wim Coucke, Philippe Herman, Sigrid C. J. De Keersmaecker, Xavier Saelens (UGent) , Nancy H. C. Roosens and Kevin Vanneste

(2021) FRONTIERS IN MICROBIOLOGY. 12.
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Evaluation of WGS performance for bacterial pathogen characterization with the Illumina technology optimized for time-critical situations

Bert Bogaerts (UGent) , 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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Case report : multidrug resistant Raoultella ornithinolytica in a septicemic calf

Mathilde Pas (UGent) , Kevin Vanneste (UGent) , Jade Bokma (UGent) , Laura Van Driessche, Sigrid C. J. De Keersmaecker, Nancy H. Roosens, Freddy Haesebrouck (UGent) , Filip Boyen (UGent) and Bart Pardon (UGent)

(2021) FRONTIERS IN VETERINARY SCIENCE. 8.

Academic Bibliography

Using a combination of short- and long-read sequencing to investigate the diversity in plasmid- and chromosomally encoded extended-spectrum beta-lactamases (ESBLs) in clinical Shigella and Salmonella isolates in Belgium

Retrospective surveillance of viable Bacillus cereus group contaminations in commercial food and feed vitamin B2 products sold on the Belgian market using whole-genome sequencing

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

Whole-genome sequence approach and phylogenomic stratification improve the association analysis of mutations with patient data in influenza surveillance

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

A general approach to identify low-frequency variants within influenza samples collected during routine surveillance

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

Strategy and performance evaluation of low-frequency variant calling for SARS-CoV-2 using targeted deep Illumina sequencing

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

Case report : multidrug resistant Raoultella ornithinolytica in a septicemic calf

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