Those listed below are interested in microbiome research in Canada, including researchers, developers, funders and domain experts from academia, industry, and government. If you would like to be added to this list, please sign up for a MicrobiomeCanada account here and email [email protected]

First Name Last Name Position Affiliation Province Researcher type Research area/interests
Emma Allen-Vercoe Professor University of Guelph Ontario Industry, Academic Culture of microbial ecosystems, predominantly from the human colon but also other sites/animals. Use of bioreactors to support whole ecosystems. Development of complex but defined microbial ecosystems. Understanding and characterizing the hunter/gatherer human gut microbiome; culture and characterization of rare taxa/missing microbes. Anaerobic microbiology. Development of 'microbial ecosystem therapeutics' to treat human disease. Co-founder and CSO of NuBiyota LLC to promote translational microbiota research and develop novel biologic drug products based on the microbiome.
Marie-Claire Arrieta Assistant Professor University of Calgary Alberta Clinical, Academic Early-life microbiome, asthma, microbial eukaryotes, immune development
Meghan Azad Associate Professor University of Manitoba Manitoba Clinical, Academic Infant microbiome, human milk composition, developmental origins of health and disease, breastfeeding, infant nutrition, donor human milk, maternal nutrition, artificial sweeteners
Robert Beiko Professor Dalhousie University Nova Scotia Academic Bioinformatics software: microbial ecology, lateral gene transfer, geographic analysis, sequence classification. Also interested in relationships between the microbiome and frailty.
Claire Bertelli PDF Simon Fraser University British Columbia Academic
Fiona Brinkman Professor Simon Fraser University British Columbia Academic Integration of microbiome data with other data, and application of integrated approaches for studying infectious diseases, microbial interactions. Development of bioinformatic resources for genomic epidemiology, understanding pathogen evolution, and improving prediction of new vaccine/drug targets. Also applying our approaches to study innate immunity, allergic disease, and the environment.
Marina Costa Fujishima graduate student University of Manitoba Manitoba vaginal microbiome
Qingling Duan Assistant Professor Queen's University Ontario Academic My research program in bioinformatics aims to identify novel biological mechanisms underlying multifactorial traits/diseases by employing statistical and machine learning methods such as: i) additive and multiplicative models for integrating genomic variations with environmental exposures to determine interaction effects; ii) epistatic and network approaches to construct gene networks ; iii) develop novel methods for simultaneous analysis of multiple ‘omics datasets (e.g., genomics, transcriptomics, metabolomics, microbiome) to study the complex and dynamic nature of biological networks.
Mehrbod Estaki PDF University of California San Diego British Columbia Clinical, Industry, Academic, Government, NGO, Funding agency host-microbiome interaction, gut-brain axis, bioinformatics, metagenomics, microbial ecology, inflammatory bowel disease, exercise, UTI, Alzheimer's disease, QIIME 2, R, python, FMT, benchmarking bioinformatics tools/pipelines.
Gerry Giesbrecht Associate Professor University of Calgary Alberta Clinical My lab is interested in the relations between the gut microbiota and human behavior. Specifically, we are interested in the role of the gut microbiota in shaping neurocognitive and mental health outcomes among children. Much of our work also incorporates components of the stress response systems, including the vagus nerve and the hypothalamic-pituitary-adrenal axis.
Celia Greenwood Senior Investigator Lady Davis Institute for Medical Research Quebec Academic Statistical methods development for microbiome data and other 'omic data.
Janet Hill Professor University of Saskatchewan Saskatchewan Academic Microbial diversity and interactions, infectious disease, microbiomes of humans and other animals, reproductive health, barcode sequencing, diagnostics
Jessie Hulst Associate professor The Hospital for Sick Children Ontario Clinical, Academic Pediatric malnutrition, growth and body composition Pediatric gastroenterology
Justin Jia PhD Graduate Student Simon Fraser University British Columbia Academic Bioinformatics, tool development, 16s amplicon and shotgun metagenomic sequencing of microbiomes. My current project involves detecting and understanding the lateral gene transfer of antimicrobial resistance in the environment, and studying the effect of environmental contaminants on Canadian beluga health and identify microbiome biomarkers of such contaminants.
Steven Kembel Professor UQAM Quebec Academic Microbial ecology & evolution, quantitative biology, bioinformatics
Eric Yunhan Kwon PhD Student McMaster University Ontario Academic inflammatory bowel disease; environmental/dietary/xenobiotic influence on host-microbiome interaction; intestinal organoids;
Morgan Langille Assistant Professor Dalhousie University Nova Scotia Academic Development of bioinformatic methods for microbiome research and studies involving host-microbe interactions. Also I run the Integrated Microbiome Resource (
Ian Lewis Assistant Professor University of Calgary Alberta Academic The Lewis Research Group’s Calgary Metabolomic Research Facility (CMRF) is the metabolomics and proteomics lead for the International Microbiome Centre, and it serves as the metabolomics hub for the IMPACTT Microbiome core. Through these partnerships, the Lewis Research Group supports a variety of investigations into the proteomic and metabolomic underpinnings of host-microbiome interactions.
Leyuan Li PDF University of Ottawa Ontario Academic Metaproteomics, high-throughput microbiome assay, gut microbiome, bioinformatics for multivariate statistics and visualization, microbial ecology, ecosystem engineering.
Jean Macklaim Bioinformatics scientist Industry: Diversigen/DNA Genotek Ontario Industry Human microbiome; vaginal and urogenital; women's health; applications of bioinformatic and statistical approaches on biological and clinical data; compositional data analyses; sequencing technologies; multi-omics data integration
Kellie MacLean Graduate Student - Health Data & Biostatistics University of Calgary Alberta Clinical, Academic Using AI based approaches for antimicrobial resistance strategies, pattern recognition in biofilms, data visualization, and bacteriophage matching.
Karen Madsen Professor University of Alberta Alberta Academic environmental and dietary influences on host-microbial interactions; inflammatory bowel disease; fecal microbial transplantation; obesity and metabolic syndrome; fiber
Andrew McArthur Associate Professor McMaster University Ontario Academic bioinformatics, antimicrobial resistance, Comprehensive Antibiotic Resistance Database, metagenomics
Kathy McCoy Professor University of Calgary Alberta Academic Microbiome, immunology
Kelly McNagny Professor University of British Columbia British Columbia Academic Immunology, Stem Cell Biology, Mucosal Immune Response, Innate Lymphoid Cells, Tissue Repair and Fibrosis, Cancer, Cell Trafficking, Vascular Biology, Kidney Function and Disease
Arthur Mortha Assistant Professor University of Toronto Ontario Academic 1. Innate Lymphoid Cell (ILC) biology 2. Host-microbiome interactions 3. Myeloid Cell biology
Dongyan Niu Assistant Professor University of Calgary Alberta Academic Bacteriophage genome and therapy
John Parkinson Senior Scientist Hospital for Sick Children Ontario Academic Eukaryotic Microbiome; Metatranscriptomics; Malnutrition; Inflammatory Bowel Diseases; Global Health; Poultry Microbiome; Community Metabolic Models; Community Probiotics
Mike Peabody Grad student Simon Fraser University British Columbia Academic Metagenomics with a focus on freshwater microbial ecology. I am also interested in the relationship between the microbiome and health.
Amanda Ricciuto Assistant Professor The Hospital for Sick Children Ontario Academic Paediatric colitis, primary sclerosing cholangitis
Jonathan Schertzer Associate Professor McMaster University Ontario Academic Immunometabolism, diabetes, obesity, microbiota, postbiotics: We are interested in figuring out how xenobiotics, diet and microbial stress promote or combat obesity, prediabetes, and diabetic complications. We are excited to help students discover new aspects in the 2-way street between host glucose and commensal or pathogenic bacteria.
Diego Silva Lecturer (Assistant Professor) University of Sydney British Columbia Academic microbiome and ethics; public health ethics
Mason Stothart Grad Student University of Calgary Alberta Academic Host-microbiome ecology and (co)evolution in the wild. Mechanisms of intergenerational transmission of the host-microbiome relationship. Evolution to (and from) and anthropogenic niches, particularly in the context of feral systems and urban ecosystems.
Padmaja Subbarao Clinician-Scientist Hospital for Sick Children Ontario Clinical, Academic The CHILD study is a birth cohort study aimed at understanding the root causes of asthma, allergy and the development of chronic disease. Children, now age 8 years, have been followed along with their mothers since early pregnancy. Children have been exquisitely phenotyped for asthma and allergy and have provided repeated biological samples since early life. Unique to this study is the extensive objective measures obtained in allergy (skin prick testing) since infancy as well as lung function that has been repeated since infancy.
Mariia Taguer PhD student McGill University Quebec Academic Gut bacterial physiology, single-cell methods
Amel Taibi Lecturer, staff scientist University of Toronto Ontario Academic Nutrition, Microbiology
Thomas Tompkins Research Director Rosell Institute for Microbiome and Probiotics Quebec Industry Microbiome-Gut-Brain Axis. Microbial influence on behaviour and neurodegeneration. Microbiome in the context of dietary and drug interventions.
Helen Tremlett Professor UBC British Columbia Academic multiple sclerosis; microbiome; pharmaco-epidemiology; drug safety; drug effectiveness; pharmacogenomics
Carolina Tropini Assistant Professor University of British Columbia British Columbia Academic In the Tropini lab, we are investigating how a disrupted physical environment in diseases such as inflammatory bowel disease (IBD) and chronic diarrhea affect the microbiota and host at a multi-scale level. We are a cross-disciplinary group that incorporates techniques from microbiology, bioengineering, biophysics and more to create highly parallel assays and study how bacteria and communities function, with the eventual goal of translating the knowledge we gain to improve human health.
Thea Van Rossum PDF EMBL Academic Human and environmental microbiome analysis and tool development. Teaching data analysis skills and programming.
Benjamin Willing Associate Professor and Canada Research Chair in Microbiology of Nutrigenomics University of Alberta, Agricultural, Food and Nutritional Science Alberta Academic My lab is interested in understanding the role of the intestinal microbiota and diet-microbe-host interactions in health outcomes, with particular focus on metabolic disease and infection resistance. We use rodent and pig gnotobiotic models with defined communities to understand the role of previously uncharacterized microbes in microbial ecology, metabolite production, and host responses. Microbes that we are currently focusing on include Prevotella, Parasutterella, Escherichia coli and yeast. We are also working on improving microbial formulations of kefir.
Eytan Wine Associate Professor University of Alberta Alberta Academic Host-microbe interactions, especially related to pediatric inflammatory bowel diseases (IBD). Also interested in effects of nutrition on micrbiome. Lab uses human samples, translational models, and wet-lab methods.