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2021
Large diversity of linezolid-resistant isolates discovered in food-producing animals through linezolid selective monitoring in Belgium in 2019., Timmermans, Michaël, Bogaerts Bert, Vanneste Kevin, De Keersmaecker Sigrid C. J., Roosens Nancy, Kowalewicz Carole, Simon Guillaume, M Argudín Angeles, Deplano Ariane, Hallin Marie, et al. , J Antimicrob Chemother, 2021 Oct 21, (2021)
Large diversity of linezolid-resistant isolates discovered in food-producing animals through linezolid selective monitoring in Belgium in 2019, Timmermans, Michaël, Bogaerts Bert, Vanneste Kevin, De Keersmaecker Sigrid C. J., Roosens Nancy, Kowalewicz Carole, Simon Guillaume, Argudín Maria A., Deplano Ariane, Hallin Marie, et al. , Journal of Antimicrobial Chemotherapy, Sep-10-2022, Volume 77, Issue 1, (2021)
Phylogenomic Investigation of Increasing Fluoroquinolone Resistance among Belgian Cases of Shigellosis between 2013 and 2018 Indicates Both Travel-Related Imports and Domestic Circulation., Bogaerts, Bert, Winand Raf, Van Braekel Julien, Mattheus Wesley, De Keersmaecker Sigrid C. J., Roosens Nancy, Marchal Kathleen, Vanneste Kevin, and Ceyssens Pieter-Jan , Microorganisms, 2021 Apr 06, Volume 9, Issue 4, (2021)
Retrospective evaluation of routine whole genome sequencing of Mycobacterium tuberculosis at the Belgian National Reference Center, 2019., Soetaert, Karine, Ceyssens Pieter-Jan, Boarbi Samira, Bogaerts Bert, Delcourt Thomas, Vanneste Kevin, De Keersmaecker Sigrid C. J., Roosens Nancy, Vodolazkaia Alexandra, Mukovnikova Marina, et al. , Acta Clin Belg, 2021 Nov 09, (2021)
Retrospective survey of unauthorized genetically modified bacteria harbouring antimicrobial resistance genes in feed additive vitamin B2 commercialized in Belgium: Challenges and solutions, Fraiture, Marie-Alice, Joly Laure, Vandermassen Els, Delvoye Maud, Van Geel D., Michelet Jean-Yves, Van Hoeck Els, De Jaeger Nathalie, Papazova N., and Roosens Nancy , Food Control, Jan-01-2021, Volume 119, (2021)
A shotgun metagenomics approach to detect and characterize unauthorized genetically modified microorganisms in microbial fermentation products, Buytaers, Florence E., Fraiture Marie-Alice, Berbers Bas, Vandermassen Els, Hoffman Stefan, Papazova N., Vanneste Kevin, Marchal Kathleen, Roosens Nancy, and De Keersmaecker Sigrid C. J. , Food Chemistry: Molecular Sciences, Jan-07-2021, Volume 2, (2021)
Strategy and Performance Evaluation of Low-Frequency Variant Calling for SARS-CoV-2 Using Targeted Deep Illumina Sequencing, Van Poelvoorde, Laura, Delcourt Thomas, Coucke Wim, Herman Philippe, De Keersmaecker Sigrid C. J., Saelens Xavier, Roosens Nancy, and Vanneste Kevin , Frontiers in Microbiology, Jan-10-2022, Volume 12, (2021)
Strategy to Develop and Evaluate a Multiplex RT-ddPCR in Response to SARS-CoV-2 Genomic Evolution., Van Poelvoorde, Laura, Gand Mathieu, Fraiture Marie-Alice, De Keersmaecker Sigrid C. J., Verhaegen Bavo, Van Hoorde Koenraad, Cay Ann Brigitte, Balmelle Nadège, Herman Philippe, and Roosens Nancy , Curr Issues Mol Biol, 2021 Nov 06, Volume 43, Issue 3, (2021)
A systematic review and meta-analysis of host genetic factors associated with influenza severity, Van Goethem, Nina, Danwang Célestin, Bossuyt Nathalie, Van Oyen Herman, Roosens Nancy, and Robert Annie , BMC Genomics, Jan-12-2021, Volume 22, Issue 1, (2021)
A systematic review and meta-analysis of host genetic factors associated with influenza severity, Van Goethem, Nina, Danwang Célestin, Bossuyt Nathalie, Van Oyen Herman, Roosens Nancy, and Robert Annie , BMC Genomics, Jan-12-2021, Volume 22, Issue 1, (2021)
Towards Real-Time and Affordable Strain-Level Metagenomics-Based Foodborne Outbreak Investigations Using Oxford Nanopore Sequencing Technologies, Buytaers, Florence E., Saltykova Assia, Denayer Sarah, Verhaegen Bavo, Vanneste Kevin, Roosens Nancy, Piérard Denis, Marchal Kathleen, and De Keersmaecker Sigrid C. J. , Frontiers in Microbiology, May-11-2021, Volume 12, (2021)
Validation strategy of a bioinformatics whole genome sequencing workflow for Shiga toxin-producing Escherichia coli using a reference collection extensively characterized with conventional methods, Bogaerts, Bert, Nouws Stéphanie, Verhaegen Bavo, Denayer Sarah, Van Braekel Julien, Winand Raf, Fu Qiang, Crombé Florence, Piérard Denis, Marchal Kathleen, et al. , Microbial Genomics, Jan-03-2021, Volume 7, Issue 3, (2021)
Whole Genome Sequencing Provides an Added Value to the Investigation of Staphylococcal Food Poisoning Outbreaks, Nouws, Stéphanie, Bogaerts Bert, Verhaegen Bavo, Denayer Sarah, Laeremans Lasse, Marchal Kathleen, Roosens Nancy, Vanneste Kevin, and De Keersmaecker Sigrid C. J. , Frontiers in Microbiology, Feb-11-2021, Volume 12, (2021)
Whole-Genome Sequencing-Based Antimicrobial Resistance Characterization and Phylogenomic Investigation of 19 Multidrug-Resistant and Extended-Spectrum Beta-Lactamase-Positive Escherichia coli Strains Collected From Hospital Patients in Benin in 2019., Yehouenou, Carine Laurence, Bogaerts Bert, De Keersmaecker Sigrid C. J., Roosens Nancy, Marchal Kathleen, Tchiakpe Edmond, Dissou Affolabi, Simon Anne, Dossou Francis Moise, Vanneste Kevin, et al. , Front Microbiol, 2021, Volume 12, (2021)
Whole-genome-based phylogenomic analysis of the Belgian 2016-2017 influenza A(H3N2) outbreak season allows improved surveillance., Van Poelvoorde, Laura, Bogaerts Bert, Qiang Fu, De Keersmaecker Sigrid C. J., Thomas Isabelle, Van Goethem Nina, Van Gucht Steven, Winand Raf, Saelens Xavier, Roosens Nancy, et al. , Microb Genom, 2021 09, Volume 7, Issue 9, (2021)
2020
The Benefits of Whole Genome Sequencing for Foodborne Outbreak Investigation from the Perspective of a National Reference Laboratory in a Smaller Country., Nouws, Stéphanie, Bogaerts Bert, Verhaegen Bavo, Denayer Sarah, Crombé Florence, De Rauw Klara, Piérard Denis, Marchal Kathleen, Vanneste Kevin, Roosens Nancy, et al. , Foods, 2020 Aug 01, Volume 9, Issue 8, (2020)
Combining short and long read sequencing to characterize antimicrobial resistance genes on plasmids applied to an unauthorized genetically modified Bacillus, Berbers, Bas, Saltykova Assia, Garcia-Graells Cristina, Philipp Patrick, Arella Fabrice, Marchal Kathleen, Winand Raf, Vanneste Kevin, Roosens Nancy, and De Keersmaecker Sigrid C. J. , Scientific Reports, Jan-12-2020, Volume 10, Issue 1, (2020)
Detection strategy targeting a chloramphenicol resistance gene from genetically modified bacteria in food and feed products, Fraiture, Marie-Alice, Deckers Marie, Papazova N., and Roosens Nancy , Food Control, Jan-02-2020, Volume 108, (2020)
Development of an NGS-Based Workflow for Improved Monitoring of Circulating Plasmids in Support of Risk Assessment of Antimicrobial Resistance Gene Dissemination., Berbers, Bas, Ceyssens Pieter-Jan, Bogaerts Pierre, Vanneste Kevin, Roosens Nancy, Marchal Kathleen, and De Keersmaecker Sigrid C. J. , Antibiotics (Basel), 2020 Aug 11, Volume 9, Issue 8, (2020)
First detection of a plasmid located carbapenem resistant blaVIM-1 gene in E. coli isolated from meat products at retail in Belgium in 2015, Garcia-Graells, Cristina, Berbers Bas, Verhaegen Bavo, Vanneste Kevin, Marchal Kathleen, Roosens Nancy, Botteldoorn N, and De Keersmaecker Sigrid C. J. , International Journal of Food Microbiology, Jan-07-2020, Volume 324, (2020)
Food Chemistry, Function and AnalysisDNA Techniques to Verify Food Authenticity CHAPTER 8. GMO Detection and Identification Using Next-generation Sequencing, Fraiture, Marie-Alice, Papazova N., Vanneste Kevin, De Keersmaecker Sigrid C. J., and Roosens Nancy , 2020, Cambridge, p.96 - 106, (2020)
Gender‐dependent association between exhaled nitric oxide and the CC16 38AA genotype in young school children, Nauwelaerts, S., Roosens Nancy, De Cremer Koen, Bernard Alfred, and De Keersmaecker Sigrid C. J. , Immunity, Inflammation and Disease, Jun-08-2020, (2020)
A genoserotyping system for a fast and objective identification of Salmonella serotypes commonly isolated from poultry and pork food sectors in Belgium., Gand, Mathieu, Mattheus Wesley, Roosens Nancy, Dierick Katelijne, Marchal Kathleen, Bertrand Sophie, and De Keersmaecker Sigrid C. J. , Food Microbiol, 2020 Oct, Volume 91, (2020)
Identification of an unauthorized genetically modified bacteria in food enzyme through whole-genome sequencing., Fraiture, Marie-Alice, Bogaerts Bert, Winand Raf, Deckers Marie, Papazova N., Vanneste Kevin, De Keersmaecker Sigrid C. J., and Roosens Nancy , Sci Rep, 2020 04 27, Volume 10, Issue 1, (2020)
Impact of DNA extraction on whole genome sequencing analysis for characterization and relatedness of Shiga toxin-producing Escherichia coli isolates, Nouws, Stéphanie, Bogaerts Bert, Verhaegen Bavo, Denayer Sarah, Piérard Denis, Marchal Kathleen, Roosens Nancy, Vanneste Kevin, and De Keersmaecker Sigrid C. J. , Scientific Reports, Jan-12-2020, Volume 10, Issue 1, (2020)

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