A spectrum of modularity in multi‐functional gene circuits

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• dc.contributor.author Jiménez, Alba
• dc.contributor.author Cotterell, James
• dc.contributor.author Munteanu, Andreea
• dc.contributor.author Sharpe, James
• dc.date.accessioned 2024-01-29T07:20:08Z
• dc.date.available 2024-01-29T07:20:08Z
• dc.date.issued 2017
• dc.description.abstract A major challenge in systems biology is to understand the relationship between a circuit's structure and its function, but how is this relationship affected if the circuit must perform multiple distinct functions within the same organism? In particular, to what extent do multi‐functional circuits contain modules which reflect the different functions? Here, we computationally survey a range of bi‐functional circuits which show no simple structural modularity: They can switch between two qualitatively distinct functions, while both functions depend on all genes of the circuit. Our analysis reveals two distinct classes: hybrid circuits which overlay two simpler mono‐functional sub‐circuits within their circuitry, and emergent circuits, which do not. In this second class, the bi‐functionality emerges from more complex designs which are not fully decomposable into distinct modules and are consequently less intuitive to predict or understand. These non‐intuitive emergent circuits are just as robust as their hybrid counterparts, and we therefore suggest that the common bias toward studying modular systems may hinder our understanding of real biological circuits.
• dc.description.sponsorship This work was supported by the Spanish Ministry of Economy, Industry and Competitiveness (MINECO), BFU2010‐16428, the European Union's Horizon 2020 research and innovation program under Grant Agreement No. 670555, and the European Union Seventh Framework Program (FP7/2007‐2013) under grant agreement 601062. We further acknowledge support of the Spanish Ministry of Economy, Industry and Competitiveness “Centro de Excelencia Severo Ochoa 2013–2017”, SEV‐2012‐0208 and of the Cerca Programme/Generalitat de Catalunya.
• dc.format.mimetype application/pdf
• dc.identifier.citation Jiménez A, Cotterell J, Munteanu A, Sharpe J. A spectrum of modularity in multi‐functional gene circuits. Molecular Systems Biology. 2017 Apr 1;13(4):925. DOI: 10.15252/msb.20167347
• dc.identifier.doi http://dx.doi.org/10.15252/msb.20167347
• dc.identifier.issn 1744-4292
• dc.identifier.uri http://hdl.handle.net/10230/58842
• dc.language.iso eng
• dc.publisher EMBO Press
• dc.relation.ispartof Molecular Systems Biology. 2017 Apr 1;13(4):925
• dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/670555
• dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/601062
• dc.relation.projectID info:eu-repo/grantAgreement/ES/3PN/BFU2010-16428
• dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/SEV-2012-0208
• dc.rights © 2017 The Authors. Published under the terms of the CC BY 4.0 license. This is an open access article under the terms of the Creative Commons Attribution 4.0 License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.subject.keyword Decomposability
• dc.subject.keyword Dynamical mechanism
• dc.subject.keyword Gene circuits
• dc.subject.keyword Modularity
• dc.subject.keyword Multi‐functionality
• dc.title A spectrum of modularity in multi‐functional gene circuits
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion