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Filtres: Auteur is Sigrid C.J. De Keersmaecker
2023
Comparison of 6 DNA extraction methods for isolation of high yield of high molecular weight DNA suitable for shotgun metagenomics Nanopore sequencing to detect bacteriaAbstractBackgroundResultsConclusion, Gand, Mathieu, Bloemen Bram, Vanneste Kevin, Roosens Nancy, and De Keersmaecker Sigrid C. J. , BMC Genomics, Jan-12-2023, Volume 24, Issue 1, (2023)
Contaminations of AMR genes linked to the presence of genetically modified microorganisms in the food and feed chain , Fraiture, Marie-Alice, De Keersmaecker Sigrid C. J., and Roosens Nancy , Brussels, Belgium, (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)
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)
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)
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)
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)
Noninvasive integrative approach applied to children in the context of recent air pollution exposure demonstrates association between fractional exhaled nitric oxide (FeNO) and urinary CC16., Nauwelaerts, S., Van Goethem Nina, De Cremer Koen, Bustos Sierra Natalia, Vercauteren Jordy, Stroobants Christophe, Bernard Alfred, Nawrot Tim, Roosens Nancy, and De Keersmaecker Sigrid C. J. , Environ Res, 2022 Sep 30, Volume 216, Issue Pt 1, (2022)
Optimised long-read sequence bioinformatics tool for the analysis of the resistome and microbial communities, AbuOun, Manal, Otani Saria, Navickaite Indre, Gand Mathieu, Bloemen Bram, Vanneste Kevin, Michelacci Valeria, Matamoros Bosco Rodríguez, Roosens Nancy, and De Keersmaecker Sigrid C. J. , 13/12/2022, Zenodo, p.12, (2022)
Population Analysis of O26 Shiga Toxin-Producing Causing Hemolytic Uremic Syndrome in Italy, 1989-2020, Through Whole Genome Sequencing., Michelacci, Valeria, Montalbano Di Filippo Margherita, Gigliucci Federica, Arancia Silvia, Chiani Paola, Minelli Fabio, Roosens Nancy, De Keersmaecker Sigrid C. J., Bogaerts Bert, Vanneste Kevin, et al. , Front Cell Infect Microbiol, 2022, Volume 12, (2022)
Report on an initial assessment of long-read sequencing for metagenome (community and AMR) analysis (defined community, spiked and real simple and complex matrices) and comparison to current short-read standard, De Keersmaecker, Sigrid C. J., Gand Mathieu, Navickaite Indre, Gruetzke Josephine, Bartsch Lee-Julia, Otani Saria, Garofolo Giuliano, Di Domenico Marco, Michelacci Valeria, Matamoros Bosco R., et al. , 13/12/2022, Zenodo, p.44, (2022)

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