A5015634711- Microbial Metabolic Engineering and Bioproduction
- Biofuel production and bioconversion
- Gene Regulatory Network Analysis
- Microbial Fuel Cells and Bioremediation
- Enzyme Catalysis and Immobilization
- Viral Infectious Diseases and Gene Expression in Insects
- Bioinformatics and Genomic Networks
- Microbial Community Ecology and Physiology
- Advanced Control Systems Optimization
- Metal Extraction and Bioleaching
- Radioactive element chemistry and processing
- Fungal and yeast genetics research
- Process Optimization and Integration
- Bacterial Genetics and Biotechnology
- Mine drainage and remediation techniques
- Corrosion Behavior and Inhibition
- Microbial bioremediation and biosurfactants
- Protein Structure and Dynamics
- RNA and protein synthesis mechanisms
- CRISPR and Genetic Engineering
- Trace Elements in Health
- Computational Drug Discovery Methods
- Anaerobic Digestion and Biogas Production
- Algal biology and biofuel production
- Metabolomics and Mass Spectrometry Studies
University of Toronto
2016-2025
Institute of Biomedical Science
2024
Applied Science Private University
2023
Institute for Educational Leadership
2020
Krembil Research Institute
2020
Toronto Western Hospital
2020
Toronto Public Health
2015
In-Q-Tel
2015
University of Massachusetts Amherst
2008
Genomatica (United States)
2003-2007
In this report, a genome-scale reconstruction of Bacillus subtilis metabolism and its iterative development based on the combination genomic, biochemical, physiological information high-throughput phenotyping experiments is presented. The initial was converted into an in silico model expanded four-step fashion. First, network gap analysis used to identify 48 missing reactions that are needed for growth but were not found genome annotation. Second, computed rates under aerobic conditions...
ABSTRACT Geobacter sulfurreducens is a well-studied representative of the Geobacteraceae , which play critical role in organic matter oxidation coupled to Fe(III) reduction, bioremediation groundwater contaminated with organics or metals, and electricity production from waste matter. In order investigate G. central metabolism electron transport, metabolic model integrated genome-based predictions available genetic physiological data was developed via constraint-based modeling approach....
Abstract Background Softwood is the predominant form of land plant biomass in Northern hemisphere, and among most recalcitrant resources to bioprocess technologies. The white rot fungus, Phanerochaete carnosa , has been isolated almost exclusively from softwoods, while other known white-rot species, including chrysosporium were mainly hardwoods. Accordingly, it anticipated that P. encodes a distinct set enzymes proteins promote softwood decomposition. To elucidate genetic basis bioconversion...
L-tyrosine is a common precursor for wide range of valuable secondary metabolites, including benzylisoquinoline alkaloids (BIAs) and many polyketides. An industrially tractable yeast strain optimized production could serve as platform the development BIA polyketide cell factories. This study applied targeted metabolomics approach to evaluate metabolic engineering strategies increase availability intracellular in Saccharomyces cerevisiae CEN.PK. Our combined localized pathway with global...
We demonstrate the first enzymatic hydrogenation of 2-hexenedioic acid and muconic to adipic using enoate reductases (ERs).
Adipic acid is an important industrial chemical used in the synthesis of nylon-6,6. The commercial adipic uses petroleum-derived benzene and releases significant quantities greenhouse gases. Biocatalytic production from renewable feedstocks could potentially reduce environmental damage eliminate need for fossil fuel precursors. Recently, we have demonstrated first enzymatic hydrogenation muconic to using microbial enoate reductases (ERs) - complex iron-sulfur flavin containing enzymes. In...
Abstract The sulfonamides (sulfas) are the oldest class of antibacterial drugs and inhibit bacterial dihydropteroate synthase (DHPS, encoded by folP ), through chemical mimicry its co-substrate p -aminobenzoic acid ( ABA). Resistance to sulfa is mediated either mutations in or acquisition sul genes, which code for sulfa-insensitive, divergent DHPS enzymes. While molecular basis resistance well understood, mechanisms mediating -based have not been investigated detail. Here, we determine...
A dynamic flux balance model based on a genome-scale metabolic network reconstruction is developed for in silico analysis of Saccharomyces cerevisiae metabolism and ethanol production fed-batch culture. Metabolic engineering strategies previously identified their enhanced steady-state biomass and/or yields are evaluated performance glucose glucose/xylose media. Dynamic shown to provide single quantitative measure productivity that explicitly handles the possible tradeoff between yields....
Abstract An alternative consolidated bioprocessing approach is the use of a co‐culture containing cellulolytic and solventogenic clostridia. It has been demonstrated that rate cellulose utilization in Clostridium acetobutylicum cellulolyticum improved compared to mono‐culture C. , suggesting presence syntrophy between these two species. However, metabolic interactions are not well understood. To understand co‐culture, we developed genome‐scale model comprising 431 genes, 621 reactions, 603...
Summary The increasing availability of the genome sequences microorganisms involved in important bioremediation processes makes it feasible to consider developing genome‐scale models that can aid predicting likely outcome potential subsurface strategies. Previous studies situ uranium‐contaminated groundwater have demonstrated Geobacter species are often dominant members community during active and primary organisms catalysing U(VI) reduction. Therefore, a genome‐scale, constraint‐based model...