Next-generation genome-scale models for metabolic engineering
Abstract
Constraint-based reconstruction and analysis (COBRA) methods have become widely used tools for metabolic engineering in both academic and industrial laboratories. By employing a genome-scale in silico representation of the metabolic network of a host organism, COBRA methods can be used to predict optimal genetic modifications that improve the rate and yield of chemical production. A new generation of COBRA models and methods is now being developed--encompassing many biological processes and simulation strategies-and next-generation models enable new types of predictions. Here, three key examples of applying COBRA methods to strain optimization are presented and discussed. Then, an outlook is provided on the next generation of COBRA models and the new types of predictions they will enable for systems metabolic engineering.
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References 49 · Cited by 157
- Authors
- King, Z. A., Lloyd, C. J., Feist, A. M., & Palsson, B. O.
- Affiliations
- University of California San Diego (US)
- Novo Nordisk Foundation (DK)
- Venue
- Current Opinion in Biotechnology
- Publisher
- Elsevier BV
- Published
- 2015-12
- Volume
- 35
- Pages
- 23-29
- ISSN
- 0958-1669 (ISSN-L)
- OpenAlex
- W2084769889
- Semantic Scholar
- 057f124d768b438ac2f5ad3b07a27ccabf8bf331
- Cited by
- 157
- References
- 49
- Citations by year
- 2026: 6 · 2025: 4 · 2024: 7 · 2023: 8 · 2022: 7 · 2021: 9 · 2020: 12 · 2019: 17 · 2018: 16 · 2017: 25 · 2016: 28 · 2015: 18
- FWCI
- 2.81
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Current Opinion in Biotechnology (publishedVersion)
- PubMed (publishedVersion)
- Technical University of Denmark, DTU Orbit (Technical University of Denmark, DTU) (submittedVersion)
- Funders
- National Science Foundation (DGE-1144086)
- Novo Nordisk Foundation
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Microbial Metabolic Engineering and Bioproduction
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Bioinformatics and Genomic Networks
- Keywords
- genome-scale metabolic models, metabolic engineering, strain optimization, metabolic network simulation, systems metabolic engineering
- MeSH terms
- Humans, Models, Biological, Genome, Gene Deletion, Biomass, Metabolic Networks and Pathways, Metabolic Engineering
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