Optimization of nonequilibrium free energy harvesting illustrated on bacteriorhodopsin
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- dc.contributor.author Piñero, Jordi
- dc.contributor.author Solé Vicente, Ricard, 1962-
- dc.contributor.author Kolchinsky, Artemy
- dc.date.accessioned 2024-04-19T06:16:08Z
- dc.date.available 2024-04-19T06:16:08Z
- dc.date.issued 2024
- dc.description.abstract Harvesting free energy from the environment is essential for the operation of many biological and artificial systems. We use techniques from stochastic thermodynamics to investigate the maximum rate of harvesting achievable by optimizing a set of reactions in a Markovian system, possibly under various kinds of topological, kinetic, and thermodynamic constraints. This question is relevant for the optimal design of new harvesting devices as well as for quantifying the efficiency of existing systems. We first demonstrate that the maximum harvesting rate can be expressed as a constrained convex optimization problem. We illustrate it on bacteriorhodopsin, a light-driven proton pump from Archaea, which we find is close to optimal under realistic conditions. In our second result, we solve the optimization problem in closed-form in three physically meaningful limiting regimes. These closed-form solutions are illustrated on two idealized models of unicyclic harvesting systems.
- dc.description.sponsorship We thank members of the Complex Systems Lab, B. Corominas-Murtra, L. Seoane, D. Wolpert, and D. Sowinski for useful discussions. A.K. also thanks Sosuke Ito for support and encouragement. This project has received funding from the European Union's Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 101068029. J.P. was supported by the María de Maeztú fellowship MDM-2014-0370-17-2 and Grant No. 62417 from the John Templeton Foundation. The opinions expressed in this publication are those of the authors and do not necessarily reflect the views of the John Templeton Foundation.
- dc.format.mimetype application/pdf
- dc.identifier.citation Piñero J, Solé R, Kolchinsky A. Optimization of nonequilibrium free energy harvesting illustrated on bacteriorhodopsin. Phys Rev Research. 2024;6:013275. DOI: 10.1103/PhysRevResearch.6.013275
- dc.identifier.doi http://dx.doi.org/10.1103/PhysRevResearch.6.013275
- dc.identifier.issn 2643-1564
- dc.identifier.uri http://hdl.handle.net/10230/59834
- dc.language.iso eng
- dc.publisher American Physical Society
- dc.relation.ispartof Phys Rev Research. 2024;6:013275
- dc.relation.projectID info:eu-repo/grantAgreement/EC/HE/101068029
- dc.rights Published by the American Physical Society under the terms of the Creative Commons Attribution 4.0 International license (https://creativecommons.org/licenses/by/4.0/). Further distribution of this work must maintain attribution to the author(s) and the published article's title, journal citation, and DOI.
- dc.rights.accessRights info:eu-repo/semantics/openAccess
- dc.rights.uri http://creativecommons.org/licenses/by/4.0/
- dc.subject.keyword Biological Physics
- dc.subject.keyword Statistical Physics
- dc.title Optimization of nonequilibrium free energy harvesting illustrated on bacteriorhodopsin
- dc.type info:eu-repo/semantics/article
- dc.type.version info:eu-repo/semantics/publishedVersion