A5067359443- Nematode management and characterization studies
- Genomics and Phylogenetic Studies
- Salmonella and Campylobacter epidemiology
- Legume Nitrogen Fixing Symbiosis
- Bacteriophages and microbial interactions
- Listeria monocytogenes in Food Safety
- Microbial infections and disease research
- Soybean genetics and cultivation
- Plant Pathogens and Resistance
- Plant Pathogens and Fungal Diseases
- Identification and Quantification in Food
- Horticultural and Viticultural Research
- Plant Taxonomy and Phylogenetics
- Microbial Community Ecology and Physiology
- Viral gastroenteritis research and epidemiology
- CRISPR and Genetic Engineering
- Mycobacterium research and diagnosis
- Forest ecology and management
- Yeasts and Rust Fungi Studies
- Bioenergy crop production and management
- Insect Resistance and Genetics
- Antibiotic Resistance in Bacteria
- Biofuel production and bioconversion
- SARS-CoV-2 and COVID-19 Research
- Mycorrhizal Fungi and Plant Interactions
Canadian Food Inspection Agency
2017-2025
Natural Resources Canada
2018
Grain Research Centre
2018
Agriculture and Agri-Food Canada
2012-2017
Université Laval
2008-2012
The yellow potato cyst nematode, Globodera rostochiensis, is a devastating plant pathogen of global economic importance. This biotrophic parasite secretes effectors from pharyngeal glands, some which were acquired by horizontal gene transfer, to manipulate host processes and promote parasitism. G. rostochiensis classified into pathotypes with different resistance-breaking phenotypes. We generate high quality genome assembly for pathotype Ro1, identify putative transfer events, map expression...
Abstract Plant cystatins, similar to other defense proteins, include hypervariable, positively selected amino acid sites presumably impacting their biological activity. Using 29 single mutants of the eighth domain tomato (Solanum lycopersicum) multicystatin, SlCYS8, we assessed here potential site-directed mutagenesis at generate cystatin variants with improved inhibitory potency and specificity toward herbivorous insect digestive cysteine (Cys) proteases. Compared several (22 out 29)...
Non-typhoidal Salmonella is a leading cause of foodborne illness worldwide. Prompt and accurate identification the sources responsible for disease outbreaks crucial to minimise infections eliminate ongoing contamination. Current subtyping tools including single nucleotide polymorphism (SNP) typing may be inadequate, in some instances, provide required discrimination among epidemiologically unrelated strains. Prophage genes represent majority accessory bacteria genomes have potential used as...
To continue to meet the increasing demands of soybean worldwide, it is crucial identify key genes regulating flowering and maturity expand cultivated regions into short season areas. Although four have been successfully utilized in early breeding programs, new governing are continuously being identified suggesting that there remains as yet undiscovered loci agronomic traits interest. The objective this study was novel involved a diverse set using genome-wide association (GWA) analyses days...
Abstract The Canadian beekeeping industry is spread across the country, with greatest proportion of managed honey bee colonies occurring in Prairie Provinces. Nationally, number beekeepers has recently been trending upwards. Simultaneously, agronomic and environmental plant pest incidents are increasing due to a factors, including introduction exotic organisms through international trade, which major pathway for potentially invasive alien species quarantine pests. Therefore, regulatory...
ABSTRACT Bovine tuberculosis is an important zoonotic infectious disease that presents a risk to human health, livestock, and wildlife. We report the complete genome sequence of new Mycobacterium bovis strain caused bovine outbreak on cattle farm in Saskatchewan, Canada, 2023.
Infections with protozoan parasites associated the consumption of fresh produce is an on-going issue in developed countries but mitigating risk hampered by lack adequate methods for their detection and identification. We a metagenomic next-generation sequencing (mNGS) assay using MinION sequencer identification intentionally contaminated lettuce to achieve more accurate rapid method than traditional molecular microscopy commonly used regulatory purposes. Lettuce (25 g) was spiked varying...
Anthropogenic activities have a major impact on the global environment. Canada’s natural resources are threatened by spread of fungal pathogens, which is facilitated agricultural practices and international trade. Fungi introduced to new environments sometimes become established, in case they can cause disease outbreaks resulting extensive forest decline. Here, we describe how nationwide sample collection strategy coupled next-generation sequencing (NGS) (i.e., metagenomics) achieve fast...
Cyst nematodes are important agricultural pests responsible for billions of dollars losses each year. Plant resistance is the most effective management tool, but it requires a close monitoring population genetics. Current technologies pathotyping and genotyping cyst time-consuming, expensive imprecise. In this study, we capitalized on reproduction mode to develop simple genetic analysis pipeline based genotyping-by-sequencing Pool-Seq. This method yielded thousands SNPs allowed us study...
Abstract Motivation The identification of contaminating sequences in a de novo assembly is challenging because the absence information on target species. For sample types where organism impossible to isolate from its matrix, such as endoparasites, endosymbionts and soil-harvested samples, contamination unavoidable. A few post-assembly decontamination methods are currently available but based only alignments databases, which can lead poor decontamination. Results We present new method...
Salmonella Infantis, a common contaminant of poultry products, is known to harbor mobile genetic elements that confer multi-drug resistance (MDR) and have been detected in many continents. Here, we report four MDR S. Infantis strains recovered from house environments Santa Cruz Island the Galapagos showing extended-spectrum β-lactamase (ESBL) reduced fluoroquinolone susceptibility. Whole-genome sequencing (WGS) revealed presence ESBL-conferring blaCTX-M-65 gene an IncFIB-like plasmid three...
Abstract Forests are threatened by many natural stressors intensified climate change and anthropogenic activities, which tend to increase their susceptibility pests pathogens. Consequently, oomycete‐related forest decline or dieback cases increasing in natural, urban, agricultural landscapes. It is this context that Christmas tree growers from Southern Québec, Canada, experiencing root rot problems, with reported incidences up 25%. In a previous study, seven Phytophthora spp. were associated...
Various factors shape the response of plants to herbivorous insects, including wounding patterns, specific chemical effectors and feeding habits attacking herbivore. Here we performed a comparative proteomic analysis plant's herbivory, using as model potato (Solanum tuberosum L.) subjected mechanical wounding, defoliation by Colorado beetle Leptinotarsa decemlineata Say, or phloem sap aphid Macrosiphum euphorbiae Thomas.Out ~500 leaf proteins monitored two-dimensional gel electrophoresis...
Potato cyst nematodes (PCNs), Globodera rostochiensis and G. pallida, cause important economic losses. They are hard to manage because of their ability remain dormant in soil for many years. Although general knowledge about these plant parasitic has considerably increased over the past decades, very little is known molecular events involved dormancy hatching, two key steps development. Here, we have studied progression PCN transcriptomes from dry cysts hatched juveniles using RNA-Seq. We...
In eastern Canada, soybean, Glycine max (L.) Merr., is the most important legume, and its cultivation expanding to new regions as cultivars for short growing season are developed. The soybean cyst nematode (SCN), Heterodera glycines Ichinohe, among destructive pests of in world. This also under quarantine regulations many countries, including Canada. Until now, SCN was only reported province Ontario. Since first detection 1988 southwestern part (1), has been found 12 other counties. It...
The rapid detection of foodborne microbial pathogens contaminating fresh fruits and vegetables during the intervening period between harvest consumption could revolutionize quality assurance food usually consumed raw those with a limited shelf life. We have developed sensitive, shotgun whole genome sequencing protocol capable detecting as few 1 colony forming unit (cfu) Salmonella enterica serovar Typhimurium spiked on 25 g lettuce. Ion Torrent platform was used to generate reads globally...
Relative gene expression analyses by qRT-PCR (quantitative reverse transcription PCR) require an internal control to normalize the data of genes interest and eliminate unwanted variation introduced sample preparation. A perfect reference should have a constant level under all experimental conditions. However, same few housekeeping selected from literature or successfully used in previous unrelated experiments are often routinely new conditions without proper validation their stability across...
Klebsiella michiganensis is a Gram-negative opportunistic pathogen that associated with many hospital-acquired infections in humans. Here, we report the complete genome sequence of K. strain isolated from Canadian wastewater treatment facility.
Campylobacter fetus is currently classified into three main subspecies, but only two of these, C. subspecies and subsp. v enerealis originate principally from ruminants where they inhabit different niches cause distinct pathogenicity. Their importance as pathogens in international trade reporting also yet the criteria defining these properties have never been fully substantiated nor understood. The situation further compromised because ability to differentiate between closely related has...
Citrobacter braakii and freundii are Gram-negative opportunistic pathogens associated with many infectious diseases, including septicemia, in humans animals. Here, we report the draft genome sequences of seven C. strains one strain isolated from Canadian wastewater treatment facilities.
is the causative agent of bovine tuberculosis, an infectious disease that affects both animals and humans thus presents a risk to public health livestock industry. Here, we report genome sequences five
Mycobacterium bovis is the primary causative agent of bovine tuberculosis, a zoonotic infectious disease that presents risk to public health, livestock, and wildlife. Here, we report complete genome sequences two strains affiliated with tuberculosis outbreaks in Canadian cattle farms 2016 2018.
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2; initially named as 2019-nCoV) is the cause of novel disease 2019 (COVID-19) pandemic. Its diagnosis relies on molecular detection viral RNA by polymerase chain reaction (PCR) while newer rapid CRISPR-based diagnostic tools are being developed. As assays rely unique sequences nucleic acid, target regions must be common to all SARS-CoV-2 circulating strains, yet with no cross-reactivity genome host and other normal or pathogenic...