Metabolic modelling approaches for describing and engineering microbial communities

García-Jiménez, Beatriz; Torres-Bacete, Jesús; Nogales, Juan; European Commission

Metabolic modelling approaches for describing and engineering microbial communities

21 Pág. Centro de Biotecnología y Genómica de Plantas

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Bibliographic Details
Main Authors:	García-Jiménez, Beatriz, Torres-Bacete, Jesús, Nogales, Juan
Other Authors:	European Commission
Format:	artículo biblioteca
Language:	English
Published:	Elsevier 2021-01
Subjects:	Computational methods, Design, Engineering, Genome-scale metabolic modelling, Microbial community, Optimization, Synthetic microbial consortia, http://metadata.un.org/sdg/8, Promote sustained, inclusive and sustainable economic growth, full and productive employment and decent work for all,
Online Access:	http://hdl.handle.net/10261/286361 http://dx.doi.org/10.13039/501100000780 http://dx.doi.org/10.13039/501100011033 https://api.elsevier.com/content/abstract/scopus_id/85098722804
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spelling	dig-inia-es-10261-2863612024-11-03T21:37:20Z Metabolic modelling approaches for describing and engineering microbial communities García-Jiménez, Beatriz Torres-Bacete, Jesús Nogales, Juan European Commission Agencia Estatal de Investigación (España) García-Jiménez, Beatriz (0000-0002-8129-6506) Nogales, Juan (0000-0002-4961-0833) Consejo Superior de Investigaciones Científicas [https://ror.org/02gfc7t72] Computational methods Design Engineering Genome-scale metabolic modelling Microbial community Optimization Synthetic microbial consortia http://metadata.un.org/sdg/8 Promote sustained, inclusive and sustainable economic growth, full and productive employment and decent work for all 21 Pág. Centro de Biotecnología y Genómica de Plantas Microbes do not live in isolation but in microbial communities. The relevance of microbial communities is increasing due to growing awareness of their influence on a huge number of environmental, health and industrial processes. Hence, being able to control and engineer the output of both natural and synthetic communities would be of great interest. However, most of the available methods and biotechnological applications involving microorganisms, both in vivo and in silico, have been developed in the context of isolated microbes. In vivo microbial consortia development is extremely difficult and costly because it implies replicating suitable environments in the wet-lab. Computational approaches are thus a good, cost-effective alternative to study microbial communities, mainly via descriptive modelling, but also via engineering modelling. In this review we provide a detailed compilation of examples of engineered microbial communities and a comprehensive, historical revision of available computational metabolic modelling methods to better understand, and rationally engineer wild and synthetic microbial communities. This work was supported by the European Union’s Horizon 2020 Research and Innovation Programme under Grant Agreements no. 814650 (SynBio4Flav) and 870294 (MixUp) and the‘‘Severo Ochoa Program for Centres of Excellence in R&D” from the Agencia Estatal de Investigación of Spain (grant SEV-2016- 0672 (2017-2021)) to the CBGP. BGJ was supported by a Postdoc toral contract associated to the Severo Ochoa Program. The authors thank Clive A. Dove for critical reading of the manuscript. Peer reviewed 2023-01-10T07:46:48Z 2023-01-10T07:46:48Z 2021-01 artículo http://purl.org/coar/resource_type/c_6501 Computational and Structural Biotechnology Journal 19: 226 - 246 (2021) 2001-0370 http://hdl.handle.net/10261/286361 10.1016/j.csbj.2020.12.003 http://dx.doi.org/10.13039/501100000780 http://dx.doi.org/10.13039/501100011033 33425254 2-s2.0-85098722804 https://api.elsevier.com/content/abstract/scopus_id/85098722804 en #PLACEHOLDER_PARENT_METADATA_VALUE# #PLACEHOLDER_PARENT_METADATA_VALUE# #PLACEHOLDER_PARENT_METADATA_VALUE# info:eu-repo/grantAgreement/EC/H2020/814650 info:eu-repo/grantAgreement/EC/H2020/870294 info:eu-repo/grantAgreement/AEI//SEV-2016- 0672 Computational and structural biotechnology journal Publisher's version https://doi.org/10.1016/j.csbj.2020.12.003 Sí open Elsevier
institution	INIA ES
collection	DSpace
country	España
countrycode	ES
component	Bibliográfico
access	En linea
databasecode	dig-inia-es
tag	biblioteca
region	Europa del Sur
libraryname	Biblioteca del INIA España
language	English
topic	Computational methods Design Engineering Genome-scale metabolic modelling Microbial community Optimization Synthetic microbial consortia http://metadata.un.org/sdg/8 Promote sustained, inclusive and sustainable economic growth, full and productive employment and decent work for all Computational methods Design Engineering Genome-scale metabolic modelling Microbial community Optimization Synthetic microbial consortia http://metadata.un.org/sdg/8 Promote sustained, inclusive and sustainable economic growth, full and productive employment and decent work for all
spellingShingle	Computational methods Design Engineering Genome-scale metabolic modelling Microbial community Optimization Synthetic microbial consortia http://metadata.un.org/sdg/8 Promote sustained, inclusive and sustainable economic growth, full and productive employment and decent work for all Computational methods Design Engineering Genome-scale metabolic modelling Microbial community Optimization Synthetic microbial consortia http://metadata.un.org/sdg/8 Promote sustained, inclusive and sustainable economic growth, full and productive employment and decent work for all García-Jiménez, Beatriz Torres-Bacete, Jesús Nogales, Juan Metabolic modelling approaches for describing and engineering microbial communities
description	21 Pág. Centro de Biotecnología y Genómica de Plantas
author2	European Commission
author_facet	European Commission García-Jiménez, Beatriz Torres-Bacete, Jesús Nogales, Juan
format	artículo
topic_facet	Computational methods Design Engineering Genome-scale metabolic modelling Microbial community Optimization Synthetic microbial consortia http://metadata.un.org/sdg/8 Promote sustained, inclusive and sustainable economic growth, full and productive employment and decent work for all
author	García-Jiménez, Beatriz Torres-Bacete, Jesús Nogales, Juan
author_sort	García-Jiménez, Beatriz
title	Metabolic modelling approaches for describing and engineering microbial communities
title_short	Metabolic modelling approaches for describing and engineering microbial communities
title_full	Metabolic modelling approaches for describing and engineering microbial communities
title_fullStr	Metabolic modelling approaches for describing and engineering microbial communities
title_full_unstemmed	Metabolic modelling approaches for describing and engineering microbial communities
title_sort	metabolic modelling approaches for describing and engineering microbial communities
publisher	Elsevier
publishDate	2021-01
url	http://hdl.handle.net/10261/286361 http://dx.doi.org/10.13039/501100000780 http://dx.doi.org/10.13039/501100011033 https://api.elsevier.com/content/abstract/scopus_id/85098722804
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_version_	1816136184388124672

Metabolic modelling approaches for describing and engineering microbial communities

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