In common with other bacterial taxa, members of the genus Neisseria are classified using a range of phenotypic and biochemical approaches, which are not entirely satisfactory in assigning isolates to species groups. Recently, there has been increasing interest in using nucleotide sequences for bacterial typing and taxonomy, but to date, no broadly accepted alternative to conventional methods is...

Salmonella enterica is a common cause of minor and large food borne outbreaks. To achieve successful and nearly 'real-time' monitoring and identification of outbreaks, reliable sub-typing is essential. Whole genome sequencing (WGS) shows great promises for using as a routine epidemiological typing tool. Here we evaluate WGS for typing of S. Typhimurium including different approaches for analyzi...

For nearly 100 years serotyping has been the gold standard for the identification of Salmonella serovars. Despite the increasing adoption of DNA-based subtyping approaches, serotype information remains a cornerstone in food safety and public health activities aimed at reducing the burden of salmonellosis. At the same time, recent advances in whole-genome sequencing (WGS) promise to revolutioniz...

Objective: Genotyping is considered an important tool for epidemiological and clinical studies. The biological differences between genotypes make genotyping important for decision-making regarding disease management and therapeutic intervention. Methods: This study has established a simple and accurate in house system for HCV core gene typing. The data were confirmed by sequencing and phylogene...

Human T-lymphotropic virus type 1 (HTLV-1) infection has been discovered recently in people of Amerindian descent living in coastal areas of British Columbia, Canada. DNA sequencing combined with phylogenetic analysis and restriction fragment length polymorphism (RFLP) typing of HTLV-1 strains recovered from these British Columbia Indians (BCI) was conducted. Sequence-based phylogenetic trees d...

background: the emergence and propagation of different phylogenetic groups of antimicrobial-resistant e. coli have become a worldwide health concern in human and veterinary medicine. therefore, the evaluation of the phylogenetic distribution of antibiotic-resistant e. coli is important for therapeutic and economic purposes. the aims of this study were to determine phylogenetic groups and patter...

BACKGROUND The categories of recognized transferable quinolone resistance determinants have been increasing sharply. The rapid horizontal transfer of these quinolone resistance genes has caused concern since they bring new dissemination possibilities for quinolone resistance. METHODS In total, 579 clinical Escherichia coli isolates were subjected to antimicrobial susceptibility testing, scree...

OBJECTIVES To obtain a broad molecular epidemiological characterization of plasmid-mediated AmpC β-lactamase CMY-2 in Escherichia coli isolates from food animals in China. METHODS A total of 1083 E. coli isolates from feces, viscera, blood, drinking water, and sub-surface soil were examined for the presence of CMY-2 β-lactamases. CMY-2-producing isolates were characterized as follows: the bla...