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Genome-scale modeling of yeast: chronology, applications and critical perspectives

Over the last 15 years, several genome-scale metabolic models (GSMMs) were developed for different yeast species, aiding both the elucidation of new biological processes and the shift toward a bio-based economy, through the design of in silico inspired cell factories. Here, an historical perspective...

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Detalles Bibliográficos
Autores principales: Lopes, Helder, Rocha, Isabel
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5812505/
https://www.ncbi.nlm.nih.gov/pubmed/28899034
http://dx.doi.org/10.1093/femsyr/fox050
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author Lopes, Helder
Rocha, Isabel
author_facet Lopes, Helder
Rocha, Isabel
author_sort Lopes, Helder
collection PubMed
description Over the last 15 years, several genome-scale metabolic models (GSMMs) were developed for different yeast species, aiding both the elucidation of new biological processes and the shift toward a bio-based economy, through the design of in silico inspired cell factories. Here, an historical perspective of the GSMMs built over time for several yeast species is presented and the main inheritance patterns among the metabolic reconstructions are highlighted. We additionally provide a critical perspective on the overall genome-scale modeling procedure, underlining incomplete model validation and evaluation approaches and the quest for the integration of regulatory and kinetic information into yeast GSMMs. A summary of experimentally validated model-based metabolic engineering applications of yeast species is further emphasized, while the main challenges and future perspectives for the field are finally addressed.
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spelling pubmed-58125052018-02-23 Genome-scale modeling of yeast: chronology, applications and critical perspectives Lopes, Helder Rocha, Isabel FEMS Yeast Res Minireview Over the last 15 years, several genome-scale metabolic models (GSMMs) were developed for different yeast species, aiding both the elucidation of new biological processes and the shift toward a bio-based economy, through the design of in silico inspired cell factories. Here, an historical perspective of the GSMMs built over time for several yeast species is presented and the main inheritance patterns among the metabolic reconstructions are highlighted. We additionally provide a critical perspective on the overall genome-scale modeling procedure, underlining incomplete model validation and evaluation approaches and the quest for the integration of regulatory and kinetic information into yeast GSMMs. A summary of experimentally validated model-based metabolic engineering applications of yeast species is further emphasized, while the main challenges and future perspectives for the field are finally addressed. Oxford University Press 2017-07-10 2017-08 /pmc/articles/PMC5812505/ /pubmed/28899034 http://dx.doi.org/10.1093/femsyr/fox050 Text en © FEMS 2017. http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs licence (http://creativecommons.org/licenses/by-nc-nd/4.0/), which permits non-commercial reproduction and distribution of the work, in any medium, provided the original work is not altered or transformed in any way, and that the work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Minireview
Lopes, Helder
Rocha, Isabel
Genome-scale modeling of yeast: chronology, applications and critical perspectives
title Genome-scale modeling of yeast: chronology, applications and critical perspectives
title_full Genome-scale modeling of yeast: chronology, applications and critical perspectives
title_fullStr Genome-scale modeling of yeast: chronology, applications and critical perspectives
title_full_unstemmed Genome-scale modeling of yeast: chronology, applications and critical perspectives
title_short Genome-scale modeling of yeast: chronology, applications and critical perspectives
title_sort genome-scale modeling of yeast: chronology, applications and critical perspectives
topic Minireview
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5812505/
https://www.ncbi.nlm.nih.gov/pubmed/28899034
http://dx.doi.org/10.1093/femsyr/fox050
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