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Zoekresultaten - 9 results

A bioinformatics WGS workflow for clinical complex isolate analysis, validated using a reference collection extensively characterized with conventional methods and approaches.

which a consensus framework is still largely absent. We developed a bioinformatics workflow for (Illumina) WGS-based routine typing of MTB Complex (MTBC) member isolates allowing complete characterization ...

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 ...

Antibiotic resistance prediction for Mycobacterium tuberculosis from genome sequence data with Mykrobe.

performance on an initial set of 3206 and an independent set of 5845 Illumina sequences. To give estimates of error rates, we use a prospectively collected dataset of 4362. Using culture based DST as the ...

Complete Genome Sequence of the Lumpy Skin Disease Virus Isolated from the First Reported Case in Greece in 2015

Serafeim C.; Dovas, Chrysostomos I.; S. Van Borm; Chondrokouki, Eleni D.; Kris De Clercq Source: Genome Announcements, Volume 5, Issue 29 (2017) Keywords: Illumina LSDV Lumpy skin disease NGS WGS Health ...

Use of next‐generation sequencing in microbial risk assessment

Publication Type: Sci. report, recommendat°, guidance doc., directive, monograph Authors: Van Hoorde, Koenraad; Butler, Francis Source: Volume 16 (2018) Keywords: Food Safety Illumina microbial risk ...

Complete Genome Sequence of an Avian Metapneumovirus Subtype A Strain Isolated from Chicken () in Brazil.

metapneumovirus (aMPV) isolated from a tracheal tissue sample of a commercial layer flock. The complete genome sequence of aMPV-A/chicken/Brazil- SP /669/2003 was obtained using MiSeq (Illumina, Inc.) sequencing. ...

Survey on the Use of Whole-Genome Sequencing for Infectious Diseases Surveillance: Rapid Expansion of European National Capacities, 2015-2016.

funding, staff, and expertise. Illumina technology was the most frequently used followed by Ion Torrent technology. The access to bioinformatics expertise and competence for routine WGS data analysis was ...

Complete Genome Sequence of a Vaccinal Newcastle Disease Virus Strain Isolated from an Owl (Rhinoptynx clamator).

APMV-1/Rhinoptynx clamator/Brazil/22516/2009 (APMV-1, avian paramyxovirus type 1) was obtained using Illumina sequencing. Phylogenetic analysis of the complete genome classified the isolate within NDV class II ...

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