Development of a Taxon-Specific Real-Time PCR Method Targeting the <i>Bacillus subtilis</i> Group to Strengthen the Control of Genetically Modified Bacteria in Fermentation Product... by Marie-Alice Fraiture, Andrea Gobbo, Nina Papazova, Nancy H. C. Roosens

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Development of a Taxon-Specific Real-Time Polymerase Chain Reaction Method to Detect <i>Trichoderma reesei</i> Contaminations in Fermentation Products by Marie-Alice Fraiture, Andrea Gobbo, Nina Papazova, Nancy H. C. Roosens

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Comparison of 6 DNA extraction methods for isolation of high yield of high molecular weight DNA suitable for shotgun metagenomics Nanopore sequencing to detect bacteria by Mathieu Gand, Bram Bloemen, Kevin Vanneste, Nancy H. C. Roosens, Sigrid C. J. De Keersmaecker

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Development of a portable on-site applicable metagenomic data generation workflow for enhanced pathogen and antimicrobial resistance surveillance by Bram Bloemen, Mathieu Gand, Kevin Vanneste, Kathleen Marchal, Nancy H. C. Roosens, Sigrid C. J. De Keersmaecker

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Development of Digital Droplet PCR Targeting the Influenza H3N2 Oseltamivir-Resistant E119V Mutation and Its Performance through the Use of Reverse Genetics Mutants by Laura A. E. Van Poelvoorde, François E. Dufrasne, Steven Van Gucht, Xavier Saelens, Nancy H. C. Roosens

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Benchmarking bacterial taxonomic classification using nanopore metagenomics data of several mock communities by Alexander Van Uffelen, Andrés Posadas, Nancy H. C. Roosens, Kathleen Marchal, Sigrid C. J. De Keersmaecker, Kevin Vanneste

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The potential of including the microbiome as biomarker in population-based health studies: methods and benefits by Florence E. Buytaers, Nicolas Berger, Johan Van der Heyden, Nancy H. C. Roosens, Sigrid C. J. De Keersmaecker

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

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Development of an NGS-Based Workflow for Improved Monitoring of Circulating Plasmids in Support of Risk Assessment of Antimicrobial Resistance Gene Dissemination by Bas Berbers, Pieter-Jan Ceyssens, Pierre Bogaerts, Kevin Vanneste, Nancy H. C. Roosens, Kathleen Marchal, Sigrid C. J. De Keersmaecker

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Metagenomics-based tracing of genetically modified microorganism contaminations in commercial fermentation products by Jolien D’aes, Marie-Alice Fraiture, Bert Bogaerts, Yari Van Laere, Sigrid C.J. De Keersmaecker, Nancy H.C. Roosens, Kevin Vanneste

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Development of a Droplet Digital PCR to Monitor SARS-CoV-2 Omicron Variant BA.2 in Wastewater Samples by Laura A. E. Van Poelvoorde, Corinne Picalausa, Andrea Gobbo, Bavo Verhaegen, Marie Lesenfants, Philippe Herman, Koenraad Van Hoorde, Nancy H. C. Roosens

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A Practical Method to Implement Strain-Level Metagenomics-Based Foodborne Outbreak Investigation and Source Tracking in Routine by Florence E. Buytaers, Assia Saltykova, Sarah Denayer, Bavo Verhaegen, Kevin Vanneste, Nancy H. C. Roosens, Denis Piérard, Kathleen Marchal, Sigrid C. J. De Keersmaecker

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Pilot market surveillance of GMM contaminations in alpha-amylase food enzyme products: A detection strategy strengthened by a newly developed qPCR method targeting a GM Bacillus li... by Marie-Alice Fraiture, Andrea Gobbo, Chloé Guillitte, Ugo Marchesi, Daniela Verginelli, Joke De Greve, Jolien D'aes, Kevin Vanneste, Nina Papazova, Nancy H.C. Roosens

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Phylogenomic Investigation of Increasing Fluoroquinolone Resistance among Belgian Cases of Shigellosis between 2013 and 2018 Indicates Both Travel-Related Imports and Domestic Circ... by Bert Bogaerts, Raf Winand, Julien Van Braekel, Wesley Mattheus, Sigrid C. J. De Keersmaecker, Nancy H. C. Roosens, Kathleen Marchal, Kevin Vanneste, Pieter-Jan Ceyssens

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Metagenomics to Detect and Characterize Viruses in Food Samples at Genome Level? Lessons Learnt from a Norovirus Study by Florence E. Buytaers, Bavo Verhaegen, Mathieu Gand, Jolien D’aes, Kevin Vanneste, Nancy H. C. Roosens, Kathleen Marchal, Sarah Denayer, Sigrid C. J. De Keersmaecker

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Non-Invasive versus Invasive Samples for Zika Virus Surveillance: A Comparative Study in New Caledonia and French Guiana in 2015–2016 by Marie-Alice Fraiture, Wim Coucke, Morgane Pol, Dominique Rousset, Ann-Claire Gourinat, Antoine Biron, Sylvia Broeders, Els Vandermassen, Myrielle Dupont-Rouzeyrol, Nancy H. C. Roosens

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Strain-level characterization of foodborne pathogens without culture enrichment for outbreak investigation using shotgun metagenomics facilitated with nanopore adaptive sampling by Florence E. Buytaers, Florence E. Buytaers, Bavo Verhaegen, Tom Van Nieuwenhuysen, Nancy H. C. Roosens, Kevin Vanneste, Kathleen Marchal, Kathleen Marchal, Sigrid C. J. De Keersmaecker

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Assessing the authenticity and purity of a commercial Bacillus thuringiensis bioinsecticide through whole genome sequencing and metagenomics approaches by Yari Van Laere, Yari Van Laere, Marie-Alice Fraiture, Andrea Gobbo, Sigrid C. J. De Keersmaecker, Kathleen Marchal, Kathleen Marchal, Nancy H. C. Roosens, Kevin Vanneste

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Genomic comparison between Mycobacterium bovis and Mycobacterium microti and in silico analysis of peptide-based biomarkers for serodiagnosis by Charlotte Moens, Charlotte Moens, Bert Bogaerts, Victor Lorente-Leal, Kevin Vanneste, Sigrid C. J. De Keersmaecker, Nancy H. C. Roosens, Laurent Mostin, David Fretin, Sylvie Marché

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Development and validation of a ddPCR assay to detect and quantify tobacco DNA in smoke and smokeless tobacco and tobacco-free products by Marie-Alice Fraiture, Andrea Gobbo, Chloé Guillitte, Sophia Barhdadi, Céline Gau, Patrick Philipp, Lucas Marmin, Ugo Marchesi, Daniela Verginelli, Nina Papazova, Céline Vanhee, Nancy H.C. Roosens

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