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Phylogeography of Human and Animal Coxiella burnetii Strains: Genetic Fingerprinting of Q Fever in Belgium
Variable-number Tandem Repeat Analysis (MLVA) (n=146), Single-Nucleotide Polymorphism (SNP) (n=92) and Whole Genome Sequencing (WGS) (n=4) methods were used to characterize samples/strains during 2009-2019. Three ...
Phylogeography of Human and Animal Coxiella burnetii Strains: Genetic Fingerprinting of Q Fever in Belgium
Variable-number Tandem Repeat Analysis (MLVA) (n=146), Single-Nucleotide Polymorphism (SNP) (n=92) and Whole Genome Sequencing (WGS) (n=4) methods were used to characterize samples/strains during 2009-2019. Three ...
A molecular assay for rapidly distinguishing the AviPro SALMONELLA VAC T vaccine strain from wild-type field isolates
resistance testing, but this sometime leads to ambiguous results with major economic implications. In this study, we used whole-genome sequencing to identify conserved and specific mutations in resistance and virulence ...
A bioinformatics WGS workflow for clinical complex isolate analysis, validated using a reference collection extensively characterized with conventional methods and approaches.
Keersmaecker; Nancy Roosens; Marchal, Kathleen; Vanessa Mathys; Vanneste, Kevin Source: J Clin Microbiol (2021) Abstract: The use of whole genome sequencing (WGS) for routine typing of bacterial isolates has ...
Whole-genome sequencing for TB source investigations: principles of ethical precision public health.
González-Candelas, F; Forier, A; Juengst, E Source: Int J Tuberc Lung Dis, Volume 25, Issue 3 (2021) Abstract: Whole-genome sequencing (WGS) of allows rapid, accurate inferences about the sources, location and timing ...
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 ...
Genomic epidemiology of emerging ESBL-producing Kentucky in Europe.
present urinary-tract infections. Bayesian time-scaled phylogeny on whole genome sequences of isolates from these cases and supplementary isolates from public sequence databases was used to infer the origin ...
Deep amplicon sequencing for culture-free prediction of susceptibility or resistance to 13 anti-tuberculous drugs.
Source: Eur Respir J (2020) Abstract: Conventional molecular tests for detecting complex (MTBC) drug resistance on clinical samples cover a limited set of mutations. Whole genome sequencing (WGS) typically ...
Development of an NGS-Based Workflow for Improved Monitoring of Circulating Plasmids in Support of Risk Assessment of Antimicrobial Resistance Gene Dissemination.
view of AMR gene localization, i.e., chromosomal or on a plasmid. Whole-genome and plasmid DNA extraction methods were compared, as were assemblies consisting of short reads (Illumina MiSeq), long reads ...
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 ...