Publication
1. Evaluating in Vitro Culture Medium of Gut Microbiome with Orthogonal Experimental Design and a Metaproteomics Approach
Leyuan Li, Xu Zhang, Zhibin Ning, Janice Mayne, Jasmine I. Moore, James Butcher, Cheng-Kang Chiang, David Mack, Alain Stintzi, Daniel Figeys
2. MetaLab: an automated pipeline for metaproteomic data analysis
Kai Cheng, Zhibin Ning, Xu Zhang, Leyuan Li, Bo Liao, Janice Mayne, Alain Stintzi, Daniel Figeys
3. Proteomic and Metaproteomic Approaches to Understand Host-Microbe Interactions
Amanda E. Starr, Shelley A. Deeke, Leyuan Li, Xu Zhang, Rachid Daoud, James Ryan, Zhibin Ning, Kai Cheng, Linh V.H. Nguyen, Elias Abou Samra, Mathieu Lavallée-Adam, Daniel Figeys
4. Investigation of copper inhibition of nitrifying moving bed biofilm (MBBR) reactors during long term operations
Alexander Schopf, Delatolla, R., Mathew, R., Alexandra Tsitouras, Kirkwood, KM.
Bioprocess and Biosystems Engineering
5. A complex of C9ORF72 and p62 uses arginine methylation to eliminate stress granules by autophagy
Maneka Chitiprolu, Chantal Jagow, Veronique Tremblay, Emma Bondy-Chorney, Geneviève Paris, Alexandre Savard, Gareth Palidwor, Francesca A Barry, Lorne Zinman, Julia Keith, Ekaterina Rogaeva, Janice Robertson, Mathieu Lavallée-Adam, John Woulfe, Jean-François Couture, Jocelyn Côté, Derrick Gibbings
6. Assessing the impact of protein extraction methods for human gut metaproteomics
Xu Zhang, Leyuan Li, Janice Mayne, Zhibin Ning, Alain Stintzi, Daniel Figeys
7. Metaproteomics reveals associations between microbiome and intestinal extracellular vesicle proteins in pediatric inflammatory bowel disease
Xu Zhang, Shelley A. Deeke, Zhibin Ning, Amanda E. Starr, James Butcher, Jennifer Li, Janice Mayne, Kai Cheng, Bo Liao, Leyuan Li, Ruth Singleton, David Mack, Alain Stintzi, Daniel Figeys
8. iMetaLab 1.0: A web platform for metaproteomics data analysis
Bo Liao, Zhibin Ning, Kai Cheng, Xu Zhang, Leyuan Li, Janice Mayne, Daniel Figeys
9. Enterobacteria and host resistance to infection
Eugene Kang, Alanna Crouse, Lucie Chevallier, Stéphanie M. Pontier, Ashwag Alzahrani, Navoun Silué, François-Xavier Campbell-Valois, Xavier Montagutelli, Samantha Gruenheid, Danielle Malo
10. Partial Nitritation at Elevated Loading Rates: Design Curves and Biofilm Characteristics
Alexander Schopf, Delatolla R., Kirkwood KM.
Bioprocess and Biosystems Engineering
11. Metaproteomic and Metabolomic Approaches for Characterizing the Gut Microbiome
Danielle L. Peters, Wenju Wang, Xu Zhang, Zhibin Ning, Janice Mayne, Daniel Figeys
12. Meso and micro-scale effects of loading and air scouring on nitrifying bio-cord biofilm
Xin Tian, Robert Delatolla
Environmental Science: Water Research & Technology
13. Nitrifying moving bed biofilm reactor: Performance at low temperatures and response to cold-shock
Warsama Ahmed, Xin Tian, Robert Delatolla
14. RNA-Seq Analysis of the T3SA regulon in Shigella flexneri reveals two new chromosomal genes upregulated in the On-state
Navoun Silué, Endrei Marcantonio, François-Xavier Campbell-Valois
15. An in vitro model maintaining taxon-specific functional activities of the gut microbiome
Leyuan Li, Elias Abou-Samra, Zhibin Ning, Xu Zhang, Janice Mayne, Janet Wang, Kai Cheng, Krystal Walker, Alain Stintzi, Daniel Figeys
Conference poster
1. Expression, purification and characterization of a potential L-cysteine desulfurase in Atopobium parvulum
Amine Belaouad, Jean-François Couture, Alain Stintzi
Department of Biochemistry, Microbiology and Immunology scientific symposium, May 2018
2. Identifying rheumatoid arthritis patients unresponsive to methotrexate using metabolomics
Francis Brière, Nancy Boucher, Pier-Luc Plante, Paul R. Fortin, Nathalie Carrier, Gilles Boire, Jacques Corbeil
American Society for mass spectrometry annual conference, Jun 2018
3. RNA-Seq analysis of Shigella flexneri transcriptional program reveals two putative T3SS substrates
Navoun Silué, François-Xavier Campbell-Valois
68th Annual Confernece of of the Canadian Society of Microbiologists, Jun 2018
4. Characterization of ApCsdA and ApSufS: two potential drug targets associated with iron-sulfur cluster formation and hydrogen sulfide production in Atopobium parvulum
Amine Belaouad, Jean-François Couture, Alain Stintzi
BioMetals 2018 International Conference, July 2018
5. Functional Screening Reveals Individual Gut Microbiome Responses to Xenobiotics
Leyuan Li, Elias Abou-Samra, Zhibin Ning, Xu Zhang, Janice Mayne, Janet Wang, Kai Cheng, Krystal Walker, Alain Stintzi, Daniel Figeys
Keystone Symposia: Microbiome: Chemical Mechanisms and Biological Consequences, Mar 2019
6. MS-PROTINI: A protein-protein interaction-assisted algorithm for the confidence assessment of peptide and protein identifications in mass spectrometry-based proteomics
Francesca A. Barry, Zhibin Ning, Daniel Figeys, Mathieu Lavallée-Adam
Canadian National Proteomics Network Annual Meeting, May 2019
7. Identifying genes required for Saccharomyces cerevisiae growth in mucin
Kevin Mercurio, Dylan Singh, Kristin Baetz
Ottawa Institute of Systems Biology Conference, Cornwall, Canada, May 2019
8. MS-PROTINI: A protein-protein interaction-assisted algorithm for the confidence assessment of peptide and protein identifications in mass spectrometry-based proteomics
9. Effect of a Mediterranean diet on plasma metabolites
Francis Brière, Nancy Boucher, Pier-Luc Plante, Didier Brassard, Simone Lemieux, Benoit Lamarche and Jacques Corbeil
American Society of Mass Spectrometry Annual Meeting, Jun 2019
10. Identification of 2 novel T3SA substrates in Shigella flexneri
Navoun Silué, François-Xavier Campbell-Valois
69th Annual Confernece of the Canadian Society of Microbiologists, Jun 2019
11. Lighting-up P. aeruginosa for anaerobic tracking
Caetanie Tchagang, François-Xavier Campbell-Valois, Thien Fah Mah
Conference presentation
1. Using modern -omics and classical yeast techniques to identify genes required for Saccharomyces cerevisiae growth in mucin
Kevin Mercurio, Dylan Singh, Kristin Baetz
International Conference on Yeast Genetics and Molecular Biology, Aug 2019