A5103161387- HIV Research and Treatment
- Immune Cell Function and Interaction
- RNA modifications and cancer
- Legume Nitrogen Fixing Symbiosis
- Genomics and Rare Diseases
- Genetics and Neurodevelopmental Disorders
- Epigenetics and DNA Methylation
- Plant-Microbe Interactions and Immunity
- Soybean genetics and cultivation
- interferon and immune responses
- vaccines and immunoinformatics approaches
- Immunotherapy and Immune Responses
- Plant Pathogens and Resistance
- Plant Pathogens and Fungal Diseases
- Cancer-related molecular mechanisms research
- Cytomegalovirus and herpesvirus research
- Fungal and yeast genetics research
- Microbial Natural Products and Biosynthesis
- Genetic factors in colorectal cancer
- Genomics and Phylogenetic Studies
- Genetic Associations and Epidemiology
- Gene expression and cancer classification
- Scientific Computing and Data Management
- Plant nutrient uptake and metabolism
- Parasitic Diseases Research and Treatment
McGill University
2016-2025
Ontario Genomics
2018-2023
McGill University and Génome Québec Innovation Centre
2014-2021
McGill Genome Centre
2020
Université Laval
2011-2017
Vaccine & Gene Therapy Institute of Florida
2012-2014
Vaccine and Gene Therapy Institute
2012-2014
Centre Hospitalier de l’Université de Montréal
2011
Institut de Biochimie et Génétique Cellulaires
2003
Université de Montréal
1972
Adjuvants are critical for the success of vaccines. Agonists microbial pattern recognition receptors (PRRs) promising new adjuvant candidates. A mechanism through which adjuvants enhance immune responses is to stimulate innate immunity. We studied response in humans synthetic double-stranded RNA (polyinosinic:polycytidylic acid [poly IC] stabilized with poly-l-lysine ICLC]), an agonist toll-like receptor (TLR) 3, and cytosolic helicase MDA-5. Transcriptional analysis blood samples from eight...
With the decreasing cost of sequencing and rapid developments in genomics technologies protocols, need for validated bioinformatics software that enables efficient large-scale data processing is growing.Here we present GenPipes, a flexible Python-based framework facilitates development deployment multi-step workflows optimized high-performance computing clusters cloud. GenPipes already implements 12 scalable pipelines various applications, including RNA sequencing, chromatin...
Local translation in neurons is partly mediated by the reactivation of stalled polysomes. Stalled polysomes may be enriched within granule fraction, defined as pellet sucrose gradients used to separate from monosomes. The mechanism how elongating ribosomes are reversibly and unstalled on mRNAs still unclear. In present study, we characterize fraction using immunoblotting, cryogenic electron microscopy (cryo-EM), ribosome profiling. We find that this isolated 5-d-old rat brains both sexes,...
Pseudozyma flocculosa is related to the model plant pathogen Ustilago maydis yet not a phytopathogen but rather biocontrol agent of powdery mildews; this relationship makes it unique for study evolution pathogenicity factors. The P. genome ∼23 Mb includes 6877 predicted protein coding genes. Genome features, including hallmarks pathogenicity, are very similar in and U. maydis, Sporisorium reilianum, hordei. Furthermore, flocculosa, strict anamorph, revealed conserved seemingly intact...
Tritrophic interactions involving a biocontrol agent, pathogen and plant have been analyzed predominantly from the perspective of agent. We conducted first comprehensive transcriptomic analysis all three organisms in an effort to understand elusive properties Pseudozyma flocculosa context its activity against Blumeria graminis f.sp. hordei as it parasitizes Hordeum vulgare. After inoculation P. flocculosa, tripartite interaction was monitored over time samples collected for scanning electron...
Chronic immune activation during HIV-1 infection contributes to morbidity and mortality in people living with HIV. To elucidate the underlying biological pathways, we evaluated whole blood gene expression trajectories from before, through acute, into chronic infection. Interferon-stimulated genes, including MX1, IFI27 ISG15, were upregulated acute infection, remained elevated strongly correlated plasma RNA as well TNF-α CXCL10 cytokine levels. In contrast, genes involved cellular responses,...
Abstract Whole genome sequencing (WGS) at high-depth (30X) allows the accurate discovery of variants in coding and non-coding DNA regions helps elucidate genetic underpinnings human health diseases. Yet, due to prohibitive cost WGS, most large-scale association studies use genotyping arrays or whole exome (WES). Here we propose a cost-effective method which call “Whole Exome Genome Sequencing” (WEGS), that combines low-depth WGS WES with up 8 samples pooled sequenced simultaneously...
ABSTRACT Whole-genome duplication (WGD) events are common across various organisms however the retention and evolution of WGD paralogs is not fully understood. Quantitative measure protein redistribution in response to deletion their paralog provides insight into sources gene retention. Here, we describe PARPAL ( PAR alog P rotein Retribution using A bundance L ocalization Yeast), a web database that houses results high-content screening deep learning neural network analysis 164 proteins...
Cold-adapted species are particularly threatened by climate change as rates of environmental warming outpace the ability many populations to adapt. Recent evidence suggests that intergenerational thermal plasticity may play a role in response cold-adapted organisms long-term changes temperature. Using RNA sequencing, we explored differential gene expression lake trout (Salvelinus namaycush), species, examine molecular processes respond elevated temperatures under conditions within-generation...
Summary Flocculosin is an antifungal glycolipid produced by the biocontrol fungus Pseudozyma flocculosa . It consists of cellobiose, O‐glycosidically linked to 3,15,16‐trihydroxypalmitic acid. The sugar moiety acylated with 2‐hydroxy‐octanoic acid and acetylated at two positions. Here we describe a gene cluster comprising 11 genes that are necessary for biosynthesis flocculosin. We compared highly similar ustilagic (UA) phytopathogenic Ustilago maydis In contrast U. , flocculosin contains...
Recombinant adenovirus (rAd) vectors are being investigated as vaccine delivery vehicles in preclinical and clinical studies. rAds constructed from different serotypes differ receptor usage, tropism, ability to activate cells, aspects of which likely contribute their immunogenicity profiles. In this study, we compared the infectivity cell stimulatory capacity recombinant serotype 5 (rAd5), 28 (rAd28), 35 (rAd35) association with respective We found that rAd28 rAd35 infected led vitro...
ABSTRACT The goal of an effective AIDS vaccine is to generate immunity that will prevent human immunodeficiency virus 1 (HIV-1) acquisition. Despite limited progress toward this goal, renewed optimism has followed the recent success RV144 trial in Thailand. However, lack complete protection suggests breakthroughs, where infection occurs despite adequate vaccination, be a reality for many candidates. We previously reported neutralizing antibodies elicited by DNA prime-recombinant adenovirus...
Abstract The RV144 vaccine trial showed reduced risk of HIV-1 acquisition by 31.2%, although mechanisms that led to protection remain poorly understood. Here we identify transcriptional correlates for after vaccination. We assess the transcriptomic profile blood collected from 223 participants and 40 placebo recipients. Pathway-level analysis negative vaccinees reveals type I interferons activate IRF7 antiviral program II interferon-stimulated genes implicated in antigen-presentation are...
Abstract Pseudozyma flocculosa (syn: Sporothrix flocculosa) was first discovered and described in 1987 as an epiphytic yeast on powdery mildew-infected clover leaves. It subsequently found to be a powerful antagonist of mildews which prompted its study development biocontrol agent (BCA). Most BCAs exert their activity through the manifestation one or more following modes action: competition, parasitism, antibiosis induced resistance. In case P. flocculosa, vitro bioassays, electron...
Over the past two decades soybeans grown in western Canada have persistently had lower seed protein than those eastern Canada. To understand discrepancy content between eastern- and western-grown soybeans, RNA-seq differential expression analysis been investigated. Ten soybean genotypes, ranging from low to high content, were four locations across (Ottawa) (Morden, Brandon, Saskatoon) Differential revealed 34 differentially expressed genes encoding Glycine max Sugars Will Eventually be...
ABSTRACT Flocculosin and ustilagic acid (UA), two highly similar antifungal cellobiose lipids, are respectively produced by Pseudozyma flocculosa , a biocontrol agent, Ustilago maydis plant pathogen. Both glycolipids contain short-chain fatty hydroxylated at the β position but differ in long acid, which is α UA flocculosin. In both organisms, biosynthesis genes arranged large clusters. The functions of most have already been characterized, those P. fhd1 gene its homolog from U. uhd1 remained...
In clear-cell renal cell carcinoma (ccRCC), loss of von Hippel-Lindau (VHL) tumour suppressor gene and reduced oxygen tension promote stabilisation hypoxia-inducible factor (HIF) family transcription factors, which changes in the expression genes that contribute to oncogenesis. Multiple studies have demonstrated significant perturbations DNA methylation ccRCC via largely unclear mechanisms modify transcriptional output cells. Here, we show status CpG dinucleotide within consensus...
Macrocyclic lactone (ML) anthelmintics are used for chemoprophylaxis heartworm infection in dogs and cats. Cases of becoming infected with heartworms, despite apparent compliance to recommended approved preventives, has led such cases being considered as suspected lack efficacy (LOE). Recently, microfilariae collected from a small number LOE isolates were source new host confirmed have reduced susceptibility ML controlled studies using L3 challenge dogs. A specific Dirofilaria immitis...
Soybean (Glycine max (L.) Merr.) is among the most valuable crops based on its nutritious seed protein and oil. Protein quality, evaluated as ratio of glycinin (11S) to β-conglycinin (7S), can play a role in food feed quality. To help uncover underlying differences between high low soybean varieties, we performed differential expression analysis total varieties 11S grown four locations across Eastern Western Canada over three years (2018–2020). Simultaneously, ten individual datasets for vs....