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2023
Development of a portable on-site applicable metagenomic data generation workflow for enhanced pathogen and antimicrobial resistance surveillanceAbstract, Bloemen, Bram, Gand Mathieu, Vanneste Kevin, Marchal Kathleen, Roosens Nancy, and De Keersmaecker Sigrid C. J. , Scientific Reports, Jan-12-2023, Volume 13, Issue 1, (2023)
Development of a Taxon-Specific Real-Time Polymerase Chain Reaction Method to Detect Trichoderma reesei Contaminations in Fermentation Products, Fraiture, Marie-Alice, Gobbo Andrea, Papazova N., and Roosens Nancy , Fermentation, Jan-11-2023, Volume 9, Issue 11, (2023)
Development of Digital Droplet PCR Targeting the Influenza H3N2 Oseltamivir-Resistant E119V Mutation and Its Performance through the Use of Reverse Genetics Mutants, Van Poelvoorde, Laura, Dufrasne François, Van Gucht Steven, Saelens Xavier, and Roosens Nancy , Current Issues in Molecular Biology, Jan-03-2023, Volume 45, Issue 3, (2023)
Development of Digital Droplet PCR Targeting the Influenza H3N2 Oseltamivir-Resistant E119V Mutation and Its Performance through the Use of Reverse Genetics Mutants., Van Poelvoorde, Laura, Dufrasne François, Van Gucht Steven, Saelens Xavier, and Roosens Nancy , Curr Issues Mol Biol, 2023 Mar 17, Volume 45, Issue 3, (2023)
A new open strategy for impurity surveillance of commercial microbial fermentation food products, Fraiture, Marie-Alice, Roosens Nancy, Papazova N., De Keersmaecker Sigrid C. J., Vanneste Kevin, Orval Rik, Van Laere Yari, Debode Frédéric, De Loose Marc, Van Poucke Christof, et al. , Brussels, Belgium, (2023)
Novel threats- State of the art of synthetic biology, T. Johansen, Bjordal, Madslien E.H., Forsman M., Ekström F., Fykse E.M., De Keersmaecker Sigrid C. J., Roosens Nancy, Vanneste Kevin, Fraiture Marie-Alice, Palyi B., et al. , Munich, Germany, (2023)
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, Bogaerts, Bert, Fraiture Marie-Alice, Van Nieuwenhuysen Tom, Jacobs Bram, Van Hoorde Koenraad, De Keersmaecker Sigrid C. J., Roosens Nancy, and Vanneste Kevin , Frontiers in Microbiology, Sep-06-2024, Volume 14, (2023)
Strain-level characterization without culture enrichment? Easing and accelerating outbreak investigation using shotgun metagenomics facilitated with nanopore adaptive sampling, Buytaers, Florence E., Verhaegen Bavo, Van Nieuwenhuysen Tom, Roosens Nancy, Vanneste Kevin, Marchal Kathleen, and De Keersmaecker Sigrid C. J. , BSFM, 2023-10-13, Brussels, Belgium, (2023)
Targeted High-Throughput Sequencing Enables the Detection of Single Nucleotide Variations in CRISPR/Cas9 Gene-Edited Organisms, Fraiture, Marie-Alice, D'aes Jolien, Guiderdoni Emmanuel, Meunier Anne-Cécile, Delcourt Thomas, Hoffman Stefan, Vandermassen Els, De Keersmaecker Sigrid C. J., Vanneste Kevin, and Roosens Nancy , Foods, Jan-02-2023, Volume 12, Issue 3, (2023)
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, Bertels, Xander, Hanoteaux Sven, Janssens Raphael, Maloux Hadrien, Verhaegen Bavo, Delputte Peter, Boogaerts Tim, van Nuijs Alexander L. N., Brogna Delphine, Linard Catherine, et al. , Science of The Total Environment, Jan-11-2023, Volume 899, (2023)
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, Bertels, Xander, Hanoteaux Sven, Janssens Raphael, Maloux Hadrien, Verhaegen Bavo, Delputte Peter, Boogaerts Tim, van Nuijs Alexander L. N., Brogna Delphine, Linard Catherine, et al. , Science of The Total Environment, 19-07-2023, Volume 899, (2023)
Transforming Shiga toxin-producing surveillance through whole genome sequencing in food safety practices., Nouws, Stéphanie, Verhaegen Bavo, Denayer Sarah, Crombé Florence, Piérard Denis, Bogaerts Bert, Vanneste Kevin, Marchal Kathleen, Roosens Nancy, and De Keersmaecker Sigrid C. J. , Front Microbiol, 2023, Volume 14, (2023)
Using a combination of short and long read sequencing to investigate the diversity in plasmid- and chromosomally encoded extended-spectrum-beta-lactamases (ESBL) in clinical Shigella and Salmonella isolates in Belgium, Berbers, Bas, Vanneste Kevin, Roosens Nancy, Marchal K., Ceyssens Pieter-Jan, and De Keersmaecker Sigrid C. J. , Microbial Genomics, 23/01/2023, Volume 9:000925, Number 23, (2023)
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, Berbers, Bas, Vanneste Kevin, Roosens Nancy, Marchal Kathleen, Ceyssens Pieter-Jan, and De Keersmaecker Sigrid C. J. , Microbial Genomics, Nov-01-2024, Volume 9, Issue 1, (2023)
Whole-genome sequencing-based phylogenomic investigation of unexpected Bacillus cereus contaminations collected from commercial vitamin B2 food and feed additives sold on the Belgian market, Bogaerts, Bert, Fraiture Marie-Alice, Huwaert Astrid, Van Nieuwenhuysen Tom, Jacobs Bram, Van Hoorde Koenraad, De Keersmaecker Sigrid C. J., Roosens Nancy, and Vanneste Kevin , Applied Bioinformatics and Public Health Microbiology , 2023, Hinxton, OK, (2023)
Whole-Genome Sequencing-Based Screening of MRSA in Patients and Healthcare Workers in Public Hospitals in Benin., Yehouenou, Laurence Carine, Bogaerts Bert, Vanneste Kevin, De Keersmaecker Sigrid C. J., Roosens Nancy, Kpangon Arsène A., Dissou Affolabi, Simon Anne, Dossou Francis Moise, and Dalleur Olivia , Microorganisms, 2023 Jul 31, Volume 11, Issue 8, (2023)
2022
Assessment of the Feasibility of a Future Integrated Larger-Scale Epidemiological Study to Evaluate Health Risks of Air Pollution Episodes in Children., Nauwelaerts, S., De Cremer Koen, Bustos Sierra Natalia, Gand Mathieu, Van Geel D., Delvoye Maud, Vandermassen Els, Vercauteren Jordy, Stroobants Christophe, Bernard Alfred, et al. , Int J Environ Res Public Health, 2022 Jul 12, Volume 19, Issue 14, (2022)
Detection and identification of authorized and unauthorized GMOs using high-throughput sequencing with the support of a sequence-based GMO database, Saltykova, Assia, Van Braekel Julien, Papazova N., Fraiture Marie-Alice, Deforce Dieter, Vanneste Kevin, De Keersmaecker Sigrid C. J., and Roosens Nancy , Food Chemistry: Molecular Sciences, Jan-07-2022, Volume 4, (2022)
Development of a taxon-specific real-time PCR method targeting the Bacillus subtilis group to strengthen the control of genetically modified bacteria in fermentation products, Fraiture, Marie-Alice, Gobbo Andrea, Papazova N., and Roosens Nancy , Fermentation, Volume 8, Issue 2, (2022)
A general approach to identify low-frequency variants within influenza samples collected during routine surveillance., Van Poelvoorde, Laura, Delcourt Thomas, Vuylsteke Marnik, De Keersmaecker Sigrid C. J., Thomas Isabelle, Van Gucht Steven, Saelens Xavier, Roosens Nancy, and Vanneste Kevin , Microb Genom, 2022 09, Volume 8, Issue 9, (2022)
Introduction of WGS in food microbiology: advantages and challenges, Verhaegen, Bavo, Botteldoorn N, Cantaert Vera, de Zutter Lieven, Delcenserie Véronique, Geeraerd Annemie, Mahillon Jacques, Mori Marcella, Pochet Brigitte, Roosens Nancy, et al. , 26th Conference on Food Microbiology, 10/2022, Brussels, Belgium, (2022)
The key role of WGS-based surveillance of Listeria monocytogenes in both human and food isolates in outbreak investigations, Van den Bossche, An, De Keersmaecker Sigrid C. J., Mattheus Wesley, Roosens Nancy, Bogaerts Bert, Vanneste Kevin, Van Hoorde Koenraad, and Verhaegen Bavo , 26th Conference on Food Microbiology, 13-14/10/2022, Issue BSFM, Brussels, Belgium, (2022)
Listeria monocytogenes isolates from Cornu aspersum snails: Whole genome-based characterization and host-pathogen interactions in a snail infection model., Charalampos, Kotzamanidis, Andigoni Malousi, Dushku Esmeralda, Dobly Alexandre, De Keersmaecker Sigrid C. J., Roosens Nancy, Argyro Karathodorou, Staikou Alexandra, Zdragas Antonios, and Yiangou Minas , Fish Shellfish Immunol, 2022 Apr, Volume 123, (2022)
Metagenomic Characterization of Multiple Genetically Modified Bacillus Contaminations in Commercial Microbial Fermentation Products, D'aes, Jolien, Fraiture Marie-Alice, Bogaerts Bert, De Keersmaecker Sigrid C. J., Roosens Nancy, and Vanneste Kevin , Life, 25/11/2022, Volume 12, Issue 12, (2022)
Metagenomics to Detect and Characterize Viruses in Food Samples at Genome Level? Lessons Learnt from a Norovirus Study, Buytaers, Florence E., Verhaegen Bavo, Gand Mathieu, D'aes Jolien, Vanneste Kevin, Roosens Nancy, Marchal Kathleen, Denayer Sarah, and De Keersmaecker Sigrid C. J. , Foods, Jan-11-2022, Volume 11, Issue 21, (2022)

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