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2024
Towards facilitated interpretation of shotgun metagenomics long-read sequencing data analyzed with KMA for the detection of bacterial pathogens and their antimicrobial resistance genes, Gand, Mathieu, Indre Navickaite, Bartsch Lee-Julia, Grützke Josephine, Overballe-Petersen Søren, Rasmussen Astrid, Otani Saria, Michelacci Valeria, Rodríguez Matamoros, Bosco, González-Zorn Bruno, et al. , Frontiers in Microbiology, Apr-04-2024, Volume 15, (2024)
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)
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)
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)
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)
Report on initial findings of on-site diagnostic tests and IT solutions for human clinical, veterinary and environmental samples for early warning of emerging resistant pathogens, AbuOun, Manal, Navickaite Indre, Wilkes Thomas I., Di Domenico Marco, Garofolo Giuliano, Bloemen Bram, Gand Mathieu, Roosens Nancy, Vanneste Kevin, De Keersmaecker Sigrid C. J., et al. , 13/12/2022, Zenodo, p.12, (2022)
Report on the feasibility of using Hi-C sequencing for metagenomics to define the context of AMR genes, De Keersmaecker, Sigrid C. J., Grützke Josephine, Deneke Carlus, Fischer Jennie, Bartsch Lee Julia, Bloemen Bram, Vanneste Kevin, D'aes Jolien, Roosens Nancy, and AbuOun Manal , 13/12/2022, Zenodo, p.10, (2022)
Shotgun metagenomics as a ONE Health tool for better protecting human health, Gand, Mathieu, Buytaers Florence E., Bloemen Bram, Saltykova Assia, Denayer Sarah, Verhaegen Bavo, Mattheus Wesley, Piérard Denis, Bogaerts Bert, Marchal Kathleen, et al. , EFSA One, 21/06/2022, Issue EFSA, (2022)
2021
SARS-CoV-2 chez les enfants et les adolescents de 0 à 17 ans en Belgique, pendant l'année scolaire 2020-2021., Proesmans, Kristiaan, Bloemen Bram, De Bock Florence, Duysburgh Els, Cornelissen Laura, and Klamer Sofieke , 01/09/2021, p.24, (2021)
SARS-CoV-2 infecties bij kinderen en jongeren van 0 tot en met 17 jaar in België, schooljaar 2020-2021, Proesmans, Kristiaan, Bloemen Bram, Hancart Sharon, De Bock Florence, Duysburgh Els, Cornelissen Laura, and Klamer Sofieke , 01/09/2021, p.24, (2021)

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