ArticleBMC systems biology2012
A genome-scale metabolic model of the lipid-accumulating yeast Yarrowia lipolytica.
Article in BMC systems biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed.
- Selecting methods for draft GEM generation in multicellular eukaryotes: a comparative analysis.BMC bioinformatics · 2026Article
- Enzyme-constrained genome-scale model of Yarrowia lipolytica predicts growth-phase specific metabolic engineering targets.Applied microbiology and biotechnology · 2026Article
- Recent advances in genetic engineering and chemical production in yeast species.FEMS yeast research · 2025Review
- Metabolic engineering ofFrontiers in bioengineering and biotechnology · 2025Article
- Identification of gene function based on models capturing natural variability of Arabidopsis thaliana lipid metabolism.Nature communications · 2023Article
- Construction and application of the genome-scale metabolic model ofFrontiers in bioengineering and biotechnology · 2023Article
- Papiliotrema laurentii: general features and biotechnological applications.Applied microbiology and biotechnology · 2022Review
- Genome-scale modeling of yeast metabolism: retrospectives and perspectives.FEMS yeast research · 2022Review
- Dissecting carbon metabolism ofComputational and structural biotechnology journal · 2022Article
- Review
- Evaluating accessibility, usability and interoperability of genome-scale metabolic models for diverse yeasts species.FEMS yeast research · 2021Article
- Fine-tuning mitochondrial activity in Yarrowia lipolytica for citrate overproduction.Scientific reports · 2021Article
- Genome-scale metabolic modeling underscores the potential of Cutaneotrichosporon oleaginosus ATCC 20509 as a cell factory for biofuel production.Biotechnology for biofuels · 2021Article
- Genome-scale metabolic reconstruction of the non-model yeastMetabolic engineering communications · 2020Article
- The Model SystemLife (Basel, Switzerland) · 2020Review
- Synthetic biology, systems biology, and metabolic engineering of Yarrowia lipolytica toward a sustainable biorefinery platform.Journal of industrial microbiology & biotechnology · 2020Review
- Phylogeny, evolution, and potential ecological relationship of cytochrome CYP52 enzymes in Saccharomycetales yeasts.Scientific reports · 2020Article
- Into the wild: new yeast genomes from natural environments and new tools for their analysis.FEMS yeast research · 2020Review
- Article
- Bioreactor-Scale Strategies for the Production of Recombinant Protein in the YeastMicroorganisms · 2019Review
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundYarrowia lipolytica is an oleaginous yeast which has emerged as an important microorganism for several biotechnological processes, such as the production of organic acids, lipases and proteases. It is also considered a good candidate for single-cell oil production. Although some of its metabolic pathways are well studied, its metabolic engineering is hindered by the lack of a genome-scale model that integrates the current knowledge about its metabolism.
resultsCombining in silico tools and expert manual curation, we have produced an accurate genome-scale metabolic model for Y. lipolytica. Using a scaffold derived from a functional metabolic model of the well-studied but phylogenetically distant yeast S. cerevisiae, we mapped conserved reactions, rewrote gene associations, added species-specific reactions and inserted specialized copies of scaffold reactions to account for species-specific expansion of protein families. We used physiological measures obtained under lab conditions to validate our predictions.
conclusionsY. lipolytica iNL895 represents the first well-annotated metabolic model of an oleaginous yeast, providing a base for future metabolic improvement, and a starting point for the metabolic reconstruction of other species in the Yarrowia clade and other oleaginous yeasts.
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