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Introduction of WGS in food microbiology: advantages and challenges
expertise. Only by putting the WGS-based results, the epidemiological evidence and the strains metadata together can a hypothesis be formulated. Further care should be given to the communication of these ...
Application of a strain-level shotgun metagenomics approach on food samples: resolution of the source of a Salmonella food-borne outbreak
Salmonella SNP analysis strain-level Abstract: Food-borne outbreak investigation currently relies on the time-consuming and challenging bacterial isolation from food, to be able to link food-derived strains to ...
Towards Real-Time and Affordable Strain-Level Metagenomics-Based Foodborne Outbreak Investigations Using Oxford Nanopore Sequencing Technologies
Sigrid C.J. De Keersmaecker Source: Frontiers in Microbiology, Volume 12 (2021) Keywords: Flongle food surveillance Metagenomics nanopore outbreak SNP analysis STEC strain-level Abstract: The current ...
Staphylococcal enterotoxin gene cluster: prediction of enterotoxin (SEG and SEI) production and of the source of food poisoning based on Saβ typing.
staphylococcal enterotoxin production, particularly enterotoxin G (SEG) and enterotoxin I (SEI). For this purpose whole genome sequences of 75 strains from different origins (food poisoning outbreaks, human, and ...
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.
Keersmaecker Source: Int J Mol Sci, Volume 21, Issue 16 (2020) Keywords: foodborne outbreak investigation public health strain-level metagenomics Abstract: Culture-independent diagnostics, such as metagenomic ...
A Practical Method to Implement Strain-Level Metagenomics-Based Foodborne Outbreak Investigation and Source Tracking in Routine.
chain reactions (qPCRs) are used in routine. In recent years, the use of whole genome sequencing (WGS) of bacterial isolates has proven its value to collect relevant information for strain ...
The Benefits of Whole Genome Sequencing for Foodborne Outbreak Investigation from the Perspective of a National Reference Laboratory in a Smaller Country.
earlier circulating STEC O157: H7 (+, +, +) and STEC O157: H7 (+, +) strains as closely related to the 2012 and 2013 outbreaks, respectively, which might have further directed epidemiological investigation ...
NAuRA: Genomic Tool to Identify Staphylococcal Enterotoxins in Strains Responsible for FoodBorne Outbreaks.
SE s constitute a protein family with 27 proteins. However, enzyme immunoassays can only detect directly in food the five classical SE s (SEA- SEE). Thus, molecular characterization methods of strains ...
Pork as a source of transmission of Toxoplasma gondii to humans: a parasite burden study in pig tissues after infection with different strains of Toxoplasma gondii as a function of time and different parasite stages.
cases. To better assess the role of pork as a source of infection for humans, the parasite burden resulting from experimental infection with different parasite stages and different strains of T. gondii ...
A pan-European ring trial to validate an International Standard for detection of Vibrio cholerae, Vibrio parahaemolyticus and Vibrio vulnificus in seafoods
procedures that provide both species level identification and discrimination of putatively pathogenic strains of V. parahaemolyticus by the determination of the presence of theromostable direct and direct ...