ArticlemSystems2021
A Multiphase Multiobjective Dynamic Genome-Scale Model Shows Different Redox Balancing among Yeast Species of the
Article in mSystems, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 44 citations in OpenAlex.
- Uncorking wine yeast genomics from grape to glass.FEMS yeast research · 2026Review
- Evaluating Canadian yeast strains for novel new-make spirit applications.FEMS yeast research · 2026Article
- Comparative Profiling of Yeast Communities in Kefir Grains and Liquid Kefir Using ITS Amplicon Next-Generation Sequencing.International journal of food science · 2026Article
- Screening of flavor-enhancing yeast and its role in fig fermentation.Frontiers in bioengineering and biotechnology · 2026Article
- Intermittent oxygenation during peak fermentation: Effect on fermentation kinetics, volatile composition, and sensory properties.Current research in food science · 2026Article
- Yeast adapts to diverse ecological niches driven by genomics and metabolic reprogramming.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Minimization of proteome reallocation explains metabolic transition in hierarchical utilization of carbon sources.mSystems · 2025Article
- Combined Isotopic Tracer and Modelling Approach Reveals Differences in Nitrogen Metabolism in S. cerevisiae, S. uvarum and S. kudriavzevii Species.Microbial biotechnology · 2025Article
- An integrated multiphase dynamic genome-scale model explains batch fermentations led by species of themSystems · 2025Article
- Evolution and applications of genome-scale metabolic models in yeast systems biology studies.FEMS yeast research · 2025Review
- Proteomic insights into the physiology and metabolism of oleaginous yeasts and filamentous fungi.Frontiers in microbiology · 2025Review
- MINN: A metabolic-informed neural network for integrating omics data into genome-scale metabolic modeling.Computational and structural biotechnology journal · 2025Article
- Yeast9: a consensus genome-scale metabolic model for S. cerevisiae curated by the community.Molecular systems biology · 2024Article
- Differences in metabolism among Saccharomyces species and their hybrids during wine fermentation.Microbial biotechnology · 2024Article
- Genome-scale metabolic models reveal determinants of phenotypic differences in non-Saccharomyces yeasts.BMC bioinformatics · 2023Article
- Divergence in the Saccharomyces Species' Heat Shock Response Is Indicative of Their Thermal Tolerance.Genome biology and evolution · 2023Article
- Understanding the role of GRE3 in the erythritol biosynthesis pathway in Saccharomyces uvarum and its implication in osmoregulation and redox homeostasis.Microbial biotechnology · 2023Article
- A Dynamic Genome-Scale Model Identifies Metabolic Pathways Associated with Cold Tolerance in Saccharomyces kudriavzevii.Microbiology spectrum · 2023Article
- Modelling the physiological status of yeast during wine fermentation enables the prediction of secondary metabolism.Microbial biotechnology · 2023Article
- The growth and metabolome of Saccharomyces uvarum in wine fermentations are strongly influenced by the route of nitrogen assimilation.Journal of industrial microbiology & biotechnology · 2023Article
Corrections and comments
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Authors and funding
9 authors at 3 institutions in 2 countries.
Funding
Abstract
Yeasts constitute over 1,500 species with great potential for biotechnology. Still, the yeast Saccharomyces cerevisiae dominates industrial applications, and many alternative physiological capabilities of lesser-known yeasts are not being fully exploited. While comparative genomics receives substantial attention, little is known about yeasts' metabolic specificity in batch cultures. Here, we propose a multiphase multiobjective dynamic genome-scale model of yeast batch cultures that describes the uptake of carbon and nitrogen sources and the production of primary and secondary metabolites. The model integrates a specific metabolic reconstruction, based on the consensus Yeast8, and a kinetic model describing the time-varying culture environment. In addition, we proposed a multiphase multiobjective flux balance analysis to compute the dynamics of intracellular fluxes. We then compared the metabolism of S. cerevisiae and Saccharomyces uvarum strains in a rich medium fermentation. The model successfully explained the experimental data and brought novel insights into how cryotolerant strains achieve redox balance. The proposed model (along with the corresponding code) provides a comprehensive picture of the main steps occurring inside the cell during batch cultures and offers a systematic approach to prospect or metabolically engineering novel yeast cell factories.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.