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Genome-scale modeling of yeast metabolism: retrospectives and perspectives

Yeasts have been widely used for production of bread, beer and wine, as well as for production of bioethanol, but they have also been designed as cell factories to produce various chemicals, advanced biofuels and recombinant proteins. To systematically understand and rationally engineer yeast metabo...

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Detalles Bibliográficos
Autores principales: Chen, Yu, Li, Feiran, Nielsen, Jens
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8862083/
https://www.ncbi.nlm.nih.gov/pubmed/35094064
http://dx.doi.org/10.1093/femsyr/foac003
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author Chen, Yu
Li, Feiran
Nielsen, Jens
author_facet Chen, Yu
Li, Feiran
Nielsen, Jens
author_sort Chen, Yu
collection PubMed
description Yeasts have been widely used for production of bread, beer and wine, as well as for production of bioethanol, but they have also been designed as cell factories to produce various chemicals, advanced biofuels and recombinant proteins. To systematically understand and rationally engineer yeast metabolism, genome-scale metabolic models (GEMs) have been reconstructed for the model yeast Saccharomyces cerevisiae and nonconventional yeasts. Here, we review the historical development of yeast GEMs together with their recent applications, including metabolic flux prediction, cell factory design, culture condition optimization and multi-yeast comparative analysis. Furthermore, we present an emerging effort, namely the integration of proteome constraints into yeast GEMs, resulting in models with improved performance. At last, we discuss challenges and perspectives on the development of yeast GEMs and the integration of proteome constraints.
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spelling pubmed-88620832022-02-23 Genome-scale modeling of yeast metabolism: retrospectives and perspectives Chen, Yu Li, Feiran Nielsen, Jens FEMS Yeast Res Minireview Yeasts have been widely used for production of bread, beer and wine, as well as for production of bioethanol, but they have also been designed as cell factories to produce various chemicals, advanced biofuels and recombinant proteins. To systematically understand and rationally engineer yeast metabolism, genome-scale metabolic models (GEMs) have been reconstructed for the model yeast Saccharomyces cerevisiae and nonconventional yeasts. Here, we review the historical development of yeast GEMs together with their recent applications, including metabolic flux prediction, cell factory design, culture condition optimization and multi-yeast comparative analysis. Furthermore, we present an emerging effort, namely the integration of proteome constraints into yeast GEMs, resulting in models with improved performance. At last, we discuss challenges and perspectives on the development of yeast GEMs and the integration of proteome constraints. Oxford University Press 2022-01-29 /pmc/articles/PMC8862083/ /pubmed/35094064 http://dx.doi.org/10.1093/femsyr/foac003 Text en © The Author(s) 2022. Published by Oxford University Press on behalf of FEMS. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Minireview
Chen, Yu
Li, Feiran
Nielsen, Jens
Genome-scale modeling of yeast metabolism: retrospectives and perspectives
title Genome-scale modeling of yeast metabolism: retrospectives and perspectives
title_full Genome-scale modeling of yeast metabolism: retrospectives and perspectives
title_fullStr Genome-scale modeling of yeast metabolism: retrospectives and perspectives
title_full_unstemmed Genome-scale modeling of yeast metabolism: retrospectives and perspectives
title_short Genome-scale modeling of yeast metabolism: retrospectives and perspectives
title_sort genome-scale modeling of yeast metabolism: retrospectives and perspectives
topic Minireview
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8862083/
https://www.ncbi.nlm.nih.gov/pubmed/35094064
http://dx.doi.org/10.1093/femsyr/foac003
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