Synthetic ecosystems: From the test tube to the biosphere

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• dc.contributor.author Solé Vicente, Ricard, 1962-
• dc.contributor.author Maull, Victor
• dc.contributor.author Amor, Daniel R.
• dc.contributor.author Pla, Jordi
• dc.contributor.author Conde Pueyo, Núria, 1983-
• dc.date.accessioned 2025-03-26T07:31:38Z
• dc.date.available 2025-03-26T07:31:38Z
• dc.date.issued 2024
• dc.description.abstract The study of ecosystems, both natural and artificial, has historically been mediated by population dynamics theories. In this framework, quantifying population numbers and related variables (associated with metabolism or biological-environmental interactions) plays a central role in measuring and predicting system-level properties. As we move toward advanced technological engineering of cells and organisms, the possibility of bioengineering ecosystems (from the gut microbiome to wildlands) opens several questions that will require quantitative models to find answers. Here, we present a comprehensive survey of quantitative modeling approaches for managing three kinds of synthetic ecosystems, sharing the presence of engineered strains. These include test tube examples of ecosystems hosting a relatively low number of interacting species, mesoscale closed ecosystems (or ecospheres), and macro-scale, engineered ecosystems. The potential outcomes of synthetic ecosystem designs and their limits will be relevant to different disciplines, including biomedical engineering, astrobiology, space exploration and fighting climate change impacts on endangered ecosystems. We propose a space of possible ecosystems that captures this broad range of scenarios and a tentative roadmap for open problems and further exploration.
• dc.description.sponsorship The authors want to thank Fernando Maestre, Víctor de Lorenzo, James Sharpe, and the members of the Complex Systems Lab for useful discussions and support and to Charlie Hutchison and Salaria Kea for inspiration. This work was supported by the Planetary Biology EMBL program (R.S., N.C.P.), the PR01018-EC-H2020-FET-Open MADONNA project and funded by the Ajuntament de Barcelona and “la Caixa” Foundation (R.S., V.M.). A PID2019-111680GB-I00 grant from the Spanish government (R.S., N.C.P.), an AGAUR 2021 SGR 00751 grant (R.S.), AGAUR FI-SDUR 2020 grant (V.M.), and a PRE2020-091968 grant from the Spanish government (J.P.M.). D.R.A. acknowledges support from the program ANR-22-CPJ2-0064-01 and the program France 2030 (project EFAR, ANR-22-PAMR-0004), both by the French “Agence Nationale de la Recherche”. R.S. thanks the Santa Fe Institute, where much of this work was done.
• dc.format.mimetype application/pdf
• dc.identifier.citation Solé R, Maull V, Amor DR, Pla Mauri J, Conde-Pueyo N. Synthetic ecosystems: From the test tube to the biosphere. ACS Synth Biol. 2024 Dec 20;13(12):3812-26. DOI: 10.1021/acssynbio.4c00384
• dc.identifier.doi http://dx.doi.org/10.1021/acssynbio.4c00384
• dc.identifier.issn 2161-5063
• dc.identifier.uri http://hdl.handle.net/10230/70012
• dc.language.iso eng
• dc.publisher American Chemical Society (ACS)
• dc.relation.ispartof ACS Synth Biol. 2024 Dec 20;13(12):3812-26
• dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/PID2019-111680GB-I00
• dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/PRE2020-091968
• dc.rights © 2024 The Authors. Published by American Chemical Society. This publication is licensed under CC-BY 4.0 (http://creativecommons.org/licenses/by/4.0/).
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.subject.keyword Ecological engineering
• dc.subject.keyword Synthetic biology
• dc.subject.keyword Climate change
• dc.subject.keyword Ecospheres
• dc.subject.keyword Life support systems
• dc.title Synthetic ecosystems: From the test tube to the biosphere
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion