Résultats de la recherche - 7 results
Transforming Shiga toxin-producing surveillance through whole genome sequencing in food safety practices.
associations between virulence genes and severe disease were determined by incorporating human metadata into the data analysis. Gaps in the surveillance system were identified and suggestions for optimization ...
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.
samples making use of data analysis tools that classify reads against a sequence database. It includes a brief comparison of two database-based read classification tools, Sigma and Sparse, using a mock ...
A Practical Method to Implement Strain-Level Metagenomics-Based Foodborne Outbreak Investigation and Source Tracking in Routine.
Sigrid C.J. De Keersmaecker Source: Microorganisms, Volume 8, Issue 8 (2020) Keywords: food surveillance Metagenomics outbreak SNP analysis STEC whole genome Abstract: The management of a foodborne ...
Impact of DNA extraction on whole genome sequencing analysis for characterization and relatedness of Shiga toxin-producing Escherichia coli isolates
plasmid and chromosome references); and (iii) WGS data analysis, i.e. isolate characterization (serotyping, virulence and antimicrobial resistance genotyping) and phylogenetic relatedness (core genome ...
Global and regional source attribution of Shiga toxin-producing Escherichia coli infections using analysis of outbreak surveillance data
Publication Type: Peer reviewed scientific article Authors: Sara M. Pires; Shannon Majowicz; Alexander Gill; Brecht Devleesschauwer Source: Epidemiology and Infection, Volume 147 (2019) Health Topics: Pathogene E. coli Pathogenic E. coli E. coli pathogèn ...
Associating sporadic, foodborne illness caused by Shiga toxin-producing Escherichia coli with specific foods: a systematic review and meta-analysis of case-control studies
Publication Type: Peer reviewed scientific article Authors: Brecht Devleesschauwer; Sara Monteiro Pires; Ian Young; Alex Gill; Shannon E Majowicz; the study team Source: Epidemiology and Infection, Volume 147 (2019) Health Topics: Pathogenic E. coli Path ...
Impact of DNA extraction on whole genome sequencing analysis for characterization and relatedness of Shiga toxin-producing Escherichia coli isolates.
Nextera XT library preparation; (ii) MiSeq sequencing (data quality, read mapping against plasmid and chromosome references); and (iii) WGS data analysis, i.e. isolate characterization (serotyping, ...