Steven Hallam

Canada Research Chair in Environmental Genomics

Microbiology and Immunology

Faculty of Science

Steven harnesses the awesome power of environmental genomics to explore the microcosmos, describing microbial community structure and function across a wide range of natural and human engineered ecosystems. Each of his projects shares a core set of interdisciplinary tools sourced from ecology, molecular biology, genetics and computer science, and each views microbial community members as cellular constituents within the body of an ecosystem providing essential nutritional, energetic or detoxification services through distributed networks of metabolite exchange and feedback regulation.

BPI Publications

A compendium of bacterial and archaeal single-cell amplified genomes from oxygen deficient marine waters Scientific Data, 2023
A Guide to Gene-Centric Analysis Using TreeSAPP Current Protocols, 2023
Complete Genome Sequence of Phormidium yuhuli AB48, Isolated from an Industrial Photobioreactor Environment Microbiology Resource Announcements, 2023
Corrigendum: The survivor strain: Isolation and characterization of Phormidium yuhuli AB48, a filamentous phototactic cyanobacterium with biotechnological potential (Front. Bioeng. Biotechnol., (2022), 10, 932695, 10.3389/fbioe.2022.932695) Frontiers in Bioengineering and Biotechnology, 2023
Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing consortium ISME Journal, 2023
Emerging enzyme surface display systems for waste resource recovery Environmental Microbiology, 2023
Erythromycin treatment under a specific nitrogen supply affects carbon metabolism and increases poly(3-hydroxybutyrate) and glycogen accumulation in cyanobacterium Synechocystis sp. PCC 6803 Algal Research, 2023
Genome-resolved correlation mapping links microbial community structure to metabolic interactions driving methane production from wastewater Nature Communications, 2023
Methionine-producing tumor micro(be) environment fuels growth of solid tumors Cellular Oncology, 2023
Particulate and dissolved metabolite distributions along a latitudinal transect of the western Atlantic Ocean Limnology and Oceanography, 2023
Synthesis and evaluation of metal-impregnated carbon cloth supplementation to improve anaerobic digestion performance from municipal sludge Chemical Engineering Journal, 2023
Unraveling the functional dark matter through global metagenomics Nature, 2023
Comparative genomics reveals electron transfer and syntrophic mechanisms differentiating methanotrophic and methanogenic archaea PLoS Biology, 2022
Development of a data science CURE in microbiology using publicly available microbiome datasets Frontiers in Microbiology, 2022
Expanding the phylogenetic distribution of cytochrome b-containing methanogenic archaea sheds light on the evolution of methanogenesis ISME Journal, 2022
Fractional factorial experimental design for optimizing volatile fatty acids from anaerobic fermentation of municipal sludge: Microbial community and activity investigation Renewable Energy, 2022
Metagenome-Assembled Genomes for “Candidatus Phormidium sp. Strain AB48” and Co-occurring Microorganisms from an Industrial Photobioreactor Environment Microbiology Resource Announcements, 2022
On Single-Cell Enzyme Assays in Marine Microbial Ecology and Biogeochemistry Frontiers in Marine Science, 2022
Pathway-Centric Analysis of Microbial Metabolic Potential and Expression Along Nutrient and Energy Gradients in the Western Atlantic Ocean Frontiers in Marine Science, 2022
Relabeling Metabolic Pathway Data with Groups to Improve Prediction Outcomes Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 2022
The Bacteroidetes Aequorivita sp. and Kaistella jeonii Produce Promiscuous Esterases With PET-Hydrolyzing Activity Frontiers in Microbiology, 2022
The nature of gas production patterns associated with methanol degradation in natural aquifer sediments: A microcosm study Journal of Contaminant Hydrology, 2022
The survivor strain: isolation and characterization of Phormidium yuhuli AB48, a filamentous phototactic cyanobacterium with biotechnological potential Frontiers in Bioengineering and Biotechnology, 2022
Thousands of small, novel genes predicted in global phage genomes Cell Reports, 2022
Two-step activated carbon cloth enhances microbial interactions and methane production during anaerobic digestion of municipal sludge Renewable Energy, 2022
An integrated, modular approach to data science education in microbiology PLoS Computational Biology, 2021
Biochar amendment rapidly shifts microbial community structure with enhanced thermophilic digestion activity Bioresource Technology, 2021
Discovery and development of promiscuous O-glycan hydrolases for removal of intact sialyl T-antigen ACS Chemical Biology, 2021
Ecology and molecular targets of hypermutation in the global microbiome Nature Communications, 2021
Ecology of inorganic sulfur auxiliary metabolism in widespread bacteriophages Nature Communications, 2021
Hive Panel Explorer: an interactive network visualization tool Bioinformatics (Oxford, England), 2021
Leveraging heterogeneous network embedding for metabolic pathway prediction Bioinformatics, 2021
Mercury methylation by metabolically versatile and cosmopolitan marine bacteria ISME Journal, 2021
Metabolic Pathway Prediction Using Non-Negative Matrix Factorization with Improved Precision Journal of Computational Biology, 2021
Prokaryotic responses to a warm temperature anomaly in northeast subarctic Pacific waters Communications Biology, 2021
The cyanobacterium Prochlorococcus has divergent light-harvesting antennae and may have evolved in a low-oxygen ocean Proceedings of the National Academy of Sciences of the United States of America, 2021
The Kwakshua Watersheds Observatory, central coast of British Columbia, Canada Hydrological Processes, 2021
A genomic catalog of Earth’s microbiomes Nature Biotechnology, 2020
Impact of carbon pricing policies on the cost and emission of the biomass supply chain: Optimization models and a case study Applied Energy, 2020
Potential virus-mediated nitrogen cycling in oxygen-depleted oceanic waters ISME Journal, 2020
Publisher Correction: A genomic catalog of Earth’s microbiomes (Nature Biotechnology, (2021), 39, 4, (499-509), 10.1038/s41587-020-0718-6) Nature Biotechnology, 2020
TreeSAPP: the Tree-based Sensitive and Accurate Phylogenetic Profiler Bioinformatics (Oxford, England), 2020

Steven Hallam

BPI Publications

Bioproducts Institute

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