Search results - 63 results

Deepening of In Silico Evaluation of SARS-CoV-2 Detection RT-qPCR Assays in the Context of New Variants

Keersmaecker Source: Genes, Volume 12, Issue 4 (2021) Keywords: SARS-CoV-2; COVID-19; variants; detection; RT-qPCR; in silico specificity evaluation; bioinformatics tool; WGS data; mismatches; primers and probes ...

Deep amplicon sequencing for culture-free prediction of susceptibility or resistance to 13 anti-tuberculous drugs.

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 requires culture. ...

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.

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, ...

Use of a Whole Genome Sequencing-based approach for Mycobacterium tuberculosis surveillance in Europe in 2017-2019: an ECDC pilot study.

Dick van Soolingen; Marieke J van der Werf; Daniela Maria Cirillo; ECDC molecular surveillance project participants Source: Eur Respir J (2020) Abstract: Whole genome sequencing (WGS) can be used for ...

Phylogeography of Human and Animal Strains: Genetic Fingerprinting of Q Fever in Belgium.

Sequencing (WGS) (n=4) methods were used to characterize samples/strains during 2009-2019. Three MLVA clusters (A, B, C) subdivided in 23 subclusters (A1- A12, B1- B8, C1- C3) and 3 SNP types (SNP1, SNP2, ...

Development of a genoserotyping system for the identification of Salmonella serotypes

sequences of more than 230 000 Salmonella isolates), from the scientific literature and from genomic studies using publicly available and in-house produced Whole Genome Sequencing (WGS) data (achieving ...

Combining short and long read sequencing to characterize antimicrobial resistance genes on plasmids applied to an unauthorized genetically modified Bacillus

sequencing (WGS) is a powerful tool to monitor AMR determinants. However, plasmids are difficult to reconstruct from WGS data. This study aimed to improve the characterization, including the localization of ...

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