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Whole-Genome Sequence Approach and Phylogenomic Stratification Improve the Association Analysis of Mutations With Patient Data in Influenza Surveillance

Publication Type: Peer reviewed scientific article Authors: Van Poelvoorde, Laura; Vanneste, Kevin; De Keersmaecker, Sigrid; Thomas, Isabelle; Van Goethem, Nina; Van Gucht, Steven; Saelens, Xavier; Roosens, Nancy Source: Frontiers in Microbiology, Volume ...

Genomic Insights into Methicillin-Resistant Staphylococcus aureus spa type t899 Isolates Belonging to Different Sequence Types

Publication Type: Peer reviewed scientific article Authors: Tegegne, Henok Ayalew; Koláčková, Ivana; Florianová, Martina; P Wattiau; Gelbíčová, Tereza; Boland, Cécile; Madec, Jean-Yves; Haenni, Marisa; Karpíšková, Renata Source: Applied and Environmental ...

Whole-Genome Sequence Approach and Phylogenomic Stratification Improve the Association Analysis of Mutations With Patient Data in Influenza Surveillance.

Source: Front Microbiol, Volume 13 (2022) Keywords: INFLUENZA sequencing Surveillance Abstract: Each year, seasonal influenza results in high mortality and morbidity. The current classification of ...

The 2021 WHO catalogue of complex mutations associated with drug resistance: A genotypic analysis.

anti-tuberculosis drugs. 38,215 MTBC isolates with paired whole-genome sequencing and phenotypic drug susceptibility testing data were amassed from 45 countries. For each mutation, a contingency table of binary ...

Strategy and Performance Evaluation of Low-Frequency Variant Calling for SARS-CoV-2 Using Targeted Deep Illumina Sequencing

transmissibility, pathogenicity and immune escape. Targeted SARS-CoV-2 sequencing of diagnostic and wastewater samples has been explored as an epidemiological surveillance method for the competent authorities. ...

Regulation of Neurotoxin Expression by Culture Conditions.

culture conditions. METHODS: We applied RNA sequencing (RNA-Seq) to study gene expression in small-scale batches under several culture conditions. RESULTS: We identified 1381 time-dependent differentially expressed ...

A robust, cost-effective and widely applicable whole-genome sequencing protocol for capripoxviruses

Publication Type: Peer reviewed scientific article Authors: Mathijs, Elisabeth; Haegeman, Andy; De Clercq, Kris; Van Borm, Steven; Vandenbussche, Frank Source: Journal of Virological Methods (2022) Health Topics:  Animal health Santé animale Diergezondhei ...

WGS- versus ORF5-Based Typing of PRRSV: A Belgian Case Study.

circulating PRRSV strains by means of sequencing is crucial for developing adequate control strategies. Most genetic studies only target the highly variable open reading frame (ORF) 5, for which an extensive ...

Coding-Complete Sequences of Recombinant Lumpy Skin Disease Viruses Collected in 2020 from Four Outbreaks in Northern Vietnam.

important disease in cattle. Here, we report coding-complete sequences of recombinant LSDV s from four outbreaks in October and November 2020 in northeastern Vietnam. Manuscript versions:  DOI:  ...

Metagenomic sequencing determines complete infectious bronchitis virus (avian Gammacoronavirus) vaccine strain genomes and associated viromes in chicken clinical samples.

Genes, Volume 57, Issue 6 (2021) Abstract: Infectious bronchitis virus (IBV, genus Gammacoronavirus) causes an economically important and highly contagious disease in chicken. Random primed RNA sequencing ...

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