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RNA sequencing of avian paramyxovirus (Paramyxoviridae, Avulavirinae) isolates from wild mallards in Belgium, 2021: complete genomes and coinfections.
genome segments of an AIV of subtype H11N9 could be de novo assembled from the sequencing data. Besides an AIV coinfection, RNA metagenomic data from the APMV-4 isolate also showed evidence of ...
Whole-Genome Sequencing-Based Screening of MRSA in Patients and Healthcare Workers in Public Hospitals in Benin.
These isolates were assigned to five sequence types (ST s), with ST8 (55.56%, n = 15/27), ST152 (18.52%, n = 5/27), and ST121 (18.52%, n = 5/27) being the most common. These 27 isolates carried multiple ...
A multi-country One Health foodborne outbreak simulation exercise: cross-sectoral cooperation, data sharing and communication.
Publication Type: Peer reviewed scientific article Authors: Alves, Frederico; Artursson, Karin; Bloch, Juliette; Brisabois, Anne; Hein Imberechts; Jokelainen, Pikka; La Ragione, Roberto; Lindblad, ...
Development of a Taxon-Specific Real-Time Polymerase Chain Reaction Method to Detect Trichoderma reesei Contaminations in Fermentation Products
Publication Type: Peer reviewed scientific article Authors: Fraiture, Marie-Alice; Gobbo, Andrea; N. Papazova; Roosens, Nancy H. C. Source: Fermentation, Volume 9, Issue 11 (2023) Abstract: ...
First Belgian Report of Ertapenem Resistance in an ST11 Klebsiella Pneumoniae Strain Isolated from a Dog Carrying blaSCO-1 and blaDHA-1 Combined with Permeability Defects
Antibiotics, Volume 11, Issue 9 (2022) Keywords: antimicrobial resistance (AMR) carbapenem companion animal emerging risk hybrid sequencing Klebsiella pneumoniae OmpK37 Sepsis sequence type 11 Abstract: ...
Epidemiology of the Staphylococcus aureus CA-MRSA USA300 in Belgium
Publication Type: Peer reviewed scientific article Authors: Maria A Argudín; Deplano, Ariane; Nonhoff, Claire; Nicolas Yin; Charlotte Michel; Martiny, Delphine; Sigrid C.J. De Keersmaecker; Hallin, ...
Validation strategy of a bioinformatics whole genome sequencing workflow for Shiga toxin-producing Escherichia coli using a reference collection extensively characterized with conventional methods
detection and sequence typing. The workflow supports three commonly used bioinformatics approaches for the detection of genes and alleles: alignment with blast+, kmer-based read mapping with KMA, and direct ...
Impact of DNA extraction on whole genome sequencing analysis for characterization and relatedness of Shiga toxin-producing Escherichia coli isolates
multilocus sequence typing and single nucleotide polymorphism analysis). Shiga toxin-producing Escherichia coli (STEC) was selected as a case study. Overall, data quality and inferred phylogenetic ...
Standardization of Somatic Variant Classifications in Solid and Haematological Tumours by a Two-Level Approach of Biological and Clinical Classes: An Initiative of the Belgian ComPerMed Expert Panel.
Sara Vander Borght; Els Van Valckenborgh; Aline Antoniou; Aline Hébrant Source: Cancers (Basel), Volume 11, Issue 12 (2019) Abstract: In most diagnostic laboratories, targeted next-generation sequencing ...
Taxonomic annotation of public fungal ITS sequences from the built environment- A report from an April 10-11, 2017 workshop (Aberdeen, UK)
sequence databases. In addition, the sequence metadata required to make informed taxonomic decisions – such as country and host/substrate of collection – are often lacking even from reference and ex-type ...