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Application of a strain-level shotgun metagenomics approach on food samples: resolution of the source of a Salmonella food-borne outbreak
Activités transversales en génomique appliquée Transversale activiteiten in toegepaste genomica Transversal activities in applied genomics Pathogènes alimentaires Voedselpathogenen Foodborne pathogens ...
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.
antibiotics. We used whole-genome sequencing (WGS) to evaluate antimicrobial resistance and the phylogenomic relationships of 19 ESBL-positive isolates collected from surgical site infections in patients across ...
Towards Real-Time and Affordable Strain-Level Metagenomics-Based Foodborne Outbreak Investigations Using Oxford Nanopore Sequencing Technologies
routine laboratory practices to investigate food samples in case of foodborne outbreaks still rely on attempts to isolate the pathogen in order to characterize it. We present in this study a proof of ...
Phylogenomic Investigation of Increasing Fluoroquinolone Resistance among Belgian Cases of Shigellosis between 2013 and 2018 Indicates Both Travel-Related Imports and Domestic Circulation.
Kevin; Ceyssens, Pieter-Jan Source: Microorganisms, Volume 9, Issue 4 (2021) Abstract: Shigellosis is an acute enteric infection caused mainly by the species and. Since surveillance of these pathogens ...
Adjunct Culture of Non-Starter Lactic Acid Bacteria for the Production of Provola Dei Nebrodi PDO Cheese: In Vitro Screening and Pilot-Scale Cheese-Making.
genetically identified by Rep- PCR genomic fingerprinting, using the (GTG)-primer, and by matrix-assisted laser desorption/ionisation time-of-flight mass spectrometry (MALDI- TOF MS). Twenty-seven strains, ...
Staphylococcal enterotoxin gene cluster: prediction of enterotoxin (SEG and SEI) production and of the source of food poisoning based on Saβ typing.
Graber, H U Source: Appl Environ Microbiol (2020) Keywords: S. aureus SEG SEI vSaβ type whole genomic sequencing Abstract: Currently only five (SEA- SEE) out of 27 known staphylococcal enterotoxins can be ...
Strain-Level Metagenomic Data Analysis of Enriched In Vitro and In Silico Spiked Food Samples: Paving the Way towards a Culture-Free Foodborne Outbreak Investigation Using STEC as a Case Study.
pathogens Activités transversales en génomique appliquée Transversale activiteiten in toegepaste genomica Transversal activities in applied genomics Manuscript versions: DOI: ...
A Practical Method to Implement Strain-Level Metagenomics-Based Foodborne Outbreak Investigation and Source Tracking in Routine.
De Keersmaecker, Sigrid Source: Microorganisms, Volume 8, Issue 8 (2020) Keywords: food surveillance Metagenomics outbreak SNP analysis STEC whole genome Abstract: The management of a foodborne ...
The Benefits of Whole Genome Sequencing for Foodborne Outbreak Investigation from the Perspective of a National Reference Laboratory in a Smaller Country.
WGS whole genome sequencing Abstract: Gradually, conventional methods for foodborne pathogen typing are replaced by whole genome sequencing (WGS). Despite studies describing the overall benefits, ...
NAuRA: Genomic Tool to Identify Staphylococcal Enterotoxins in Strains Responsible for FoodBorne Outbreaks.
Christos; Daskalov, Hristo; Mistou, Michel-Yves; Hennekinne, Jacques-Antoine Source: Front Microbiol, Volume 11 (2020) Keywords: bioinformatics tool; gene detection genomic staphylococcal enterotoxins genes ...