A5031479669- Antibiotic Resistance in Bacteria
- Salmonella and Campylobacter epidemiology
- Antifungal resistance and susceptibility
- Reproductive tract infections research
- Fungal Infections and Studies
- Bacterial Infections and Vaccines
- Bacteriophages and microbial interactions
- Bacterial Genetics and Biotechnology
- Enterobacteriaceae and Cronobacter Research
- RNA and protein synthesis mechanisms
- Syphilis Diagnosis and Treatment
- Antibiotic Use and Resistance
- Streptococcal Infections and Treatments
- Escherichia coli research studies
- Bacterial Identification and Susceptibility Testing
- Antimicrobial Resistance in Staphylococcus
- Microbial Metabolic Engineering and Bioproduction
- Plant Pathogenic Bacteria Studies
- Infections and bacterial resistance
- Genomics and Phylogenetic Studies
- Pharmaceutical and Antibiotic Environmental Impacts
- Mycobacterium research and diagnosis
- Plant Pathogens and Fungal Diseases
- Vibrio bacteria research studies
- Infectious Diseases and Mycology
Public Health Agency of Canada
2015-2025
University of Manitoba
2021-2025
McMaster University
2006-2016
In less than a decade, C. auris has emerged in health care settings worldwide; this species is capable of colonizing skin and causing outbreaks invasive candidiasis. contrast to other Candida species, unique its ability spread via nosocomial transmission high rates drug resistance. As part the public response, whole-genome sequencing played major role characterizing dynamics detecting new introductions. Through global collaboration, we assessed genome evolution isolates from 19 countries....
Whole genome sequencing (WGS) of Salmonella supports both molecular typing and detection antimicrobial resistance (AMR). Here, we evaluated the correlation between phenotypic susceptibility testing (AST) in silico prediction AMR from WGS enterica (n = 1321) isolated human infections Canada. Phenotypic results broth microdilution were used as gold standard. To facilitate high-throughput assemblies, created a tool called Staramr, which incorporates ResFinder PointFinder databases custom...
A curated Web-based user-friendly sequence typing tool based on antimicrobial resistance determinants in Neisseria gonorrhoeae was developed and is publicly accessible (https://ngstar.canada.ca). The N. Sequence Typing for Antimicrobial Resistance (NG-STAR) molecular scheme uses the DNA sequences of 7 genes (penA, mtrR, porB, ponA, gyrA, parC, 23S rRNA) associated with to β-lactam antimicrobials, macrolides, or fluoroquinolones. NG-STAR entire penA sequence, combining historical nomenclature...
The emergence of Neisseria gonorrhoeae strains with decreased susceptibility to cephalosporins and azithromycin (AZM) resistance (AZM(r)) represents a public health threat untreatable gonorrhea infections. Genomic epidemiology through whole-genome sequencing was used describe the emergence, dissemination, spread AZM(r) strains. genomes 213 23 AZM-susceptible N. isolates collected in Canada from 1989 2014 were sequenced. Core single nucleotide polymorphism (SNP) phylogenomic analysis resolved...
A large-scale, whole-genome comparison of Canadian Neisseria gonorrhoeae isolates with high-level cephalosporin MICs was used to demonstrate a genomic epidemiology approach investigate strain relatedness and dynamics. Although current typing methods have been very successful in tracing short-chain transmission gonorrheal disease, investigating the temporal evolutionary relationships geographical dissemination highly clonal lineages requires enhanced resolution only available through...
While genetic perturbation has been the conventional route to probing bacterial systems, small molecules are showing great promise as probes for cellular complexity. Indeed, systematic investigations of chemical-genetic interactions can provide new insights into cell networks and often starting points understanding mechanism action novel chemical probes. We have developed a robust sensitive platform chemical-genomic in bacteria. The approach monitors colony volume kinetically using...
Amphotericin B remains an important treatment for multidrug resistant Candida auris. Antifungal susceptibility testing of amphotericin in C. auris can vary depending on the methodology used. Here, we compared Etest method and Clinical Laboratory Standards Institute broth microdilution reference against 60 clinical isolates from four major clades. The minimum inhibitory concentrations differed significantly by (p-value, <0.0001) discrepancies were observed interpretation resistance...
Conventional efforts to describe essential genes in bacteria have typically emphasized nutrient-rich growth conditions. Of note, however, are the set of that become when grown under nutrient stress. For example, more than 100 indispensable model bacterium Escherichia coli is on nutrient-limited media, and many these stress also been shown be important for various bacterial pathogens vivo To better understand genetic network underpins E. coli, we performed a genome-scale cross strains...
High-throughput screening (HTS) of chemical and microbial strain collections is an indispensable tool for modern systems biology; however, HTS data sets have inherent systematic random error, which may lead to false-positive or false-negative results. Several methods normalization exist; nevertheless, due the limitations each, no single method has been universally adopted. Here, we present a visualization that effective, intuitive, easy implement in spreadsheet program. For each plate, are...
Purpose Antimicrobial resistance (AMR), especially multidrug resistance, is one of the most serious global threats facing public health. The authors proof‐of‐concept study assessing suitability shotgun proteomics as an additional approach to whole‐genome sequencing (WGS) for detecting AMR determinants. Experimental Design Previously published and WGS data on four isolates Campylobacter jejuni are used perform detection by searching Comprehensive Antibiotic Resistance Database, their ability...
Salmonella enterica subsp. serovar Dublin is a zoonotic pathogen that often leads to invasive bloodstream infections in humans are multidrug resistant. Described here the results of Canadian national surveillance S from 2003 2015 and bovines, principally collected through Integrated Program for Antibiotic Resistance Surveillance (CIPARS). An increase human due multidrug-resistant (MDR) was observed 2010, many which were infections. Phylogenomic analysis bovine isolates revealed closely...
The incidence of antimicrobial-resistant Neisseria gonorrhoeae continues to rise in Canada; however, antimicrobial resistance data are lacking for approximately 70% gonorrhea infections that diagnosed directly from clinical specimens by nucleic acid amplification tests (NAATs). We developed a molecular assay surveillance use detect mutations genes associated with decreased susceptibility cephalosporins can be applied both culture isolates and samples. Real-time PCR assays were single...
ABSTRACT Candida parapsilosis is a common cause of non - albicans candidemia. It can be transmitted in healthcare settings resulting serious healthcare-associated infections and develop drug resistance to commonly used antifungal agents. Following significant increase the percentage fluconazole (FLU)-nonsusceptible isolates from sterile site specimens patients two Ontario acute care hospital networks, we whole genome sequence (WGS) analysis retrospectively investigate genetic relatedness...
To probe the cellular phenotype and biochemical function associated with G domains of Escherichia coli EngA (YfgK, Der), mutations were created in phosphate binding loop each. Neither an S16A nor S217A variant domain 1 or 2, respectively, was able to support growth engA conditional null. Polysome profiles EngA-depleted cells significantly altered, His(6)-EngA found cofractionate 50S ribosomal subunit. The variants unable complement abnormal polysome profile furthermore impacted respect vitro...
The Joint Programming Initiative on Antimicrobial Resistance (JPIAMR) networks 'Seq4AMR' and 'B2B2B AMR Dx' were established to promote collaboration between microbial whole genome sequencing (WGS) antimicrobial resistance (AMR) stakeholders. A key topic discussed was the frequent variability in results obtained different WGS-related gene prediction workflows. Further, comparative benchmarking studies are difficult perform due differences accuracy a lack of agreement naming genes (semantic...
Ciprofloxacin is important for treatment of severe or invasive Salmonella infections in humans. As laboratories transition from phenotypic to genomics-based methods determining ciprofloxacin non-susceptibility, it define the correlation between genetic determinants resistance and outcomes. Here, we examined mechanisms tested hypothesis that isolates containing only one mechanism had intermediate while two more full according breakpoints Clinical Laboratory Standards Institute. Among 13,750...
ABSTRACT Colistin is a last-resort treatment for highly drug-resistant bacterial infections. Of 47,184 Salmonella isolates collected from 2017 to 2022 in Canada human and animal/food sources, mobile colistin resistance ( mcr ) variants conferring were detected exclusively humans n = 15). These -1.1 7), -3.1 5), -3.2 2), -1.2 1). The most common -containing serotypes I 4,[5],12:i:- 8) Typhimurium 3). proportion of carrying genes remains low (0.03%). IMPORTANCE can be used combination with...
We developed a real-time PCR assay to detect single nucleotide polymorphisms associated with ciprofloxacin resistance in specimens submitted for nucleic acid amplification testing (NAAT). All three polymorphism (SNP) targets produced high sensitivity and specificity values. The presence of ≥2 SNPs was sufficient predict an organism.
A strain of extensively drug-resistant (XDR) Salmonella enterica serovar Typhi has caused a large ongoing outbreak in Pakistan since 2016. In Ontario, Canada, 10 cases mainly bloodstream infections ( n = 9) were identified patients who traveled to Pakistan. Whole-genome sequencing showed that Canadian genetically related the strain. The appearance XDR typhoid Ontario prompted provincial wide alert physicians recommend treatment with carbapenems or azithromycin suspected travel history
Abstract Antimicrobial resistance (AMR) is a global threat. To optimize the use of our antifungal arsenal, we need rapid detection and monitoring tools that rely on high-quality AMR mutation data. Here, performed thorough manual curation published mutations in fungal pathogens to produce FungAMR reference dataset. A total 462 papers were curated, leading 54,666 entries all classified with degree evidence supports their role resistance. covers 92 species, 202 genes 184 drugs. We combined...
We have identified a Salmonella enterica serotype 4,[5],12:i:- containing mcr-3.2 in patient who travelled to Thailand 1 month prior the identification of it Canada. The isolate was multidrug resistant, but remained susceptible carbapenems, amikacin and piperacillin/tazobactam. carried on 261 Kb variant IncHI2 pWJ1. This report provides further evidence emergence ST34 colistin-resistant clone.
The synthesis of ribosomes is an essential process, which aided by a variety trans-acting factors in bacteria. Among these group GTPases for bacterial viability and emerging as promising targets new antibacterial agents. Herein, we describe robust high-throughput screening process inhibitors one such GTPase, the Escherichia coli EngA protein. primary screen employed assay phosphate production 384-well density. Reaction conditions were chosen to maximize sensitivity discovery competitive...