Search results - 31 results

Use of Whole Genome Sequencing Data for a First in Silico Specificity Evaluation of the RT-qPCR Assays Used for SARS-CoV-2 Detection.

Polymorphism, Single Nucleotide Real-Time Polymerase Chain Reaction RNA Replicase RNA, Viral Sensitivity and Specificity whole genome sequencing Abstract: The current CO ronaVIrus Disease 2019 (COVID-19) pandemic ...

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

including both core genome multilocus sequence typing (cgMLST), and single nucleotide polymorphism (SNP)-based calculation of distances on all WGS data that fulfilled minimum quality criteria to ensure data ...

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

reservoirs. To determine the relationship between animal and human strains, Multiple Locus Variable-number Tandem Repeat Analysis (MLVA) (n=146), Single-Nucleotide Polymorphism (SNP) (n=92) and Whole Genome ...

Development of a genoserotyping system for the identification of Salmonella serotypes

Paratyphi B var. Java where only one suitable marker could be retrieved among more than 3 million Single Nucleotide Polymorphism (SNP) positions obtained from a genomic comparison. This valuable SNP marker ...

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 ...

Seasonal Genetic Drift of Human Influenza A Virus Quasispecies Revealed by Deep Sequencing

Mutation frequencies and single nucleotide polymorphisms were used for comparisons to address the level of natural intrinsic heterogeneity of influenza A viruses. Clear differences in single nucleotide ...

Data analysis associated with the use of whole genome sequencing for subtyping of pathogenic microorganisms, Salmonella Typhimurium as a case study

identification of a link between the origin of an infection and the human isolate in case of outbreak situations.Here, we have explored the possibilities offered by single nucleotide polymorphism (SNP)-based ...

Optimized MOL-PCR for Characterization of Microbial Pathogens

Oligonucleotide Probes Phycoerythrin polymerase chain reaction Polymorphism, Single Nucleotide Salmonella typhimurium Streptavidin Temperature Abstract: Characterization of microbial pathogens is necessary for ...

A multiplex oligonucleotide ligation-PCR as a complementary tool for subtyping of Salmonella Typhimurium

genomic island 1 (SGI1), allantoinase gene allB, MLVA locus STTR10, antibiotic resistance genes, single nucleotide polymorphisms (SNP s) and phase 2 flagellar gene fljB. The in vitro stability of these ...

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