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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 M, Navickaite I, Bartsch LJ, Grützke J, Overballe-Petersen S, Rasmussen A, Otani S, Michelacci V, Matamoros BR, González-Zorn B, Brouwer MSM, Di Marcantonio L, Bloemen B, Vanneste K, Roosens NHCJ, AbuOun M, De Keersmaecker SCJ. Gand M, et al. Among authors: vanneste k. Front Microbiol. 2024 Apr 4;15:1336532. doi: 10.3389/fmicb.2024.1336532. eCollection 2024. Front Microbiol. 2024. PMID: 38659981 Free PMC article.
Strain-level characterization of foodborne pathogens without culture enrichment for outbreak investigation using shotgun metagenomics facilitated with nanopore adaptive sampling.
Buytaers FE, Verhaegen B, Van Nieuwenhuysen T, Roosens NHC, Vanneste K, Marchal K, De Keersmaecker SCJ. Buytaers FE, et al. Among authors: vanneste k. Front Microbiol. 2024 Mar 1;15:1330814. doi: 10.3389/fmicb.2024.1330814. eCollection 2024. Front Microbiol. 2024. PMID: 38495515 Free PMC article.
Validation of a Bioinformatics Workflow for Routine Analysis of Whole-Genome Sequencing Data and Related Challenges for Pathogen Typing in a European National Reference Center: Neisseria meningitidis as a Proof-of-Concept.
Bogaerts B, Winand R, Fu Q, Van Braekel J, Ceyssens PJ, Mattheus W, Bertrand S, De Keersmaecker SCJ, Roosens NHC, Vanneste K. Bogaerts B, et al. Among authors: vanneste k. Front Microbiol. 2019 Mar 6;10:362. doi: 10.3389/fmicb.2019.00362. eCollection 2019. Front Microbiol. 2019. PMID: 30894839 Free PMC article.
Population Analysis of O26 Shiga Toxin-Producing Escherichia coli Causing Hemolytic Uremic Syndrome in Italy, 1989-2020, Through Whole Genome Sequencing.
Michelacci V, Montalbano Di Filippo M, Gigliucci F, Arancia S, Chiani P, Minelli F, Roosens NHC, De Keersmaecker SCJ, Bogaerts B, Vanneste K, Morabito S. Michelacci V, et al. Among authors: vanneste k. Front Cell Infect Microbiol. 2022 Feb 9;12:842508. doi: 10.3389/fcimb.2022.842508. eCollection 2022. Front Cell Infect Microbiol. 2022. PMID: 35223557 Free PMC article.
Whole-Genome Sequence Approach and Phylogenomic Stratification Improve the Association Analysis of Mutations With Patient Data in Influenza Surveillance.
Van Poelvoorde L, Vanneste K, De Keersmaecker SCJ, Thomas I, Van Goethem N, Van Gucht S, Saelens X, Roosens NHC. Van Poelvoorde L, et al. Among authors: vanneste k. Front Microbiol. 2022 Apr 19;13:809887. doi: 10.3389/fmicb.2022.809887. eCollection 2022. Front Microbiol. 2022. PMID: 35516436 Free PMC article.
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 B, Vanneste K, Roosens NHCJ, Marchal K, Ceyssens PJ, De Keersmaecker SCJ. Berbers B, et al. Among authors: vanneste k. Microb Genom. 2023 Jan;9(1):mgen000925. doi: 10.1099/mgen.0.000925. Microb Genom. 2023. PMID: 36748573 Free PMC article.
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 B, Fraiture MA, Huwaert A, Van Nieuwenhuysen T, Jacobs B, Van Hoorde K, De Keersmaecker SCJ, Roosens NHC, Vanneste K. Bogaerts B, et al. Among authors: vanneste k. Front Microbiol. 2023 Jun 21;14:1173594. doi: 10.3389/fmicb.2023.1173594. eCollection 2023. Front Microbiol. 2023. PMID: 37415815 Free PMC article.
85 results