ArticleMetabolic engineering2010
Model-driven evaluation of the production potential for growth-coupled products of Escherichia coli.
Article in Metabolic engineering, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 89 papers.
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Who cites it
89 citing papers in PubMed.
- Metabolic growth-coupling strategies forMetabolic engineering communications · 2025Article
- FastKnock: an efficient next-generation approach to identify all knockout strategies for strain optimization.Microbial cell factories · 2024Article
- Computational analysis into the potential of azo dyes as a feedstock for actinorhodin biosynthesis in Pseudomonas putida.PloS one · 2024Article
- Applications of genome-scale metabolic models to investigate microbial metabolic adaptations in response to genetic or environmental perturbations.Briefings in bioinformatics · 2023Review
- Evaluation of Cell Responses ofMicroorganisms · 2023Article
- On the representativeness and stability of a set of EFMs.Bioinformatics (Oxford, England) · 2023Article
- Optimizing the strain engineering process for industrial-scale production of bio-based molecules.Journal of industrial microbiology & biotechnology · 2023Review
- Investigation of two metabolic engineering approaches for (R,R)-2,3-butanediol production from glycerol in Bacillus subtilis.Journal of biological engineering · 2023Article
- OptEnvelope: A target point guided method for growth-coupled production using knockouts.PloS one · 2023Article
- StrainDesign: a comprehensive Python package for computational design of metabolic networks.Bioinformatics (Oxford, England) · 2022Article
- A hybrid of Bees algorithm and regulatory on/off minimization for optimizing lactate and succinate production.Journal of integrative bioinformatics · 2022Article
- Examining organic acid production potential and growth-coupled strategies in Issatchenkia orientalis using constraint-based modeling.Biotechnology progress · 2022Article
- OptDesign: Identifying Optimum Design Strategies in Strain Engineering for Biochemical Production.ACS synthetic biology · 2022Article
- Vivarium: an interface and engine for integrative multiscale modeling in computational biology.Bioinformatics (Oxford, England) · 2022Article
- A Beginner's Guide to the COBRA Toolbox.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Article
- Model-guided development of an evolutionarily stable yeast chassis.Molecular systems biology · 2021Article
- Measuring and modeling energy and power consumption in living microbial cells with a synthetic ATP reporter.BMC biology · 2021Article
- Increasing ATP turnover boosts productivity of 2,3-butanediol synthesis in Escherichia coli.Microbial cell factories · 2021Article
- Dissecting the regulatory roles of ORM proteins in the sphingolipid pathway of plants.PLoS computational biology · 2021Article
29 more citing papers are in PubMed but not listed here.
Corrections and comments
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6 authors.
Funding
Abstract
Integrated approaches utilizing in silico analyses will be necessary to successfully advance the field of metabolic engineering. Here, we present an integrated approach through a systematic model-driven evaluation of the production potential for the bacterial production organism Escherichia coli to produce multiple native products from different representative feedstocks through coupling metabolite production to growth rate. Designs were examined for 11 unique central metabolism and amino acid targets from three different substrates under aerobic and anaerobic conditions. Optimal strain designs were reported for designs which possess maximum yield, substrate-specific productivity, and strength of growth-coupling for up to 10 reaction eliminations (knockouts). In total, growth-coupled designs could be identified for 36 out of the total 54 conditions tested, corresponding to eight out of the 11 targets. There were 17 different substrate/target pairs for which over 80% of the theoretical maximum potential could be achieved. The developed method introduces a new concept of objective function tilting for strain design. This study provides specific metabolic interventions (strain designs) for production strains that can be experimentally implemented, characterizes the potential for E. coli to produce native compounds, and outlines a strain design pipeline that can be utilized to design production strains for additional organisms.
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