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Free energy dissipation enhances spatial accuracy and robustness of self-positioned Turing pattern in small biochemical systems

Accurate and robust spatial orders are ubiquitous in living systems. In 1952, Turing proposed a general mechanism for pattern formation exemplified by a reaction–diffusion model with two chemical species in a large system. However, in small biological systems such as a cell, the existence of multipl...

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Detalles Bibliográficos
Autores principales: Zhang, Dongliang, Zhang, Chenghao, Ouyang, Qi, Tu, Yuhai
Formato: Online Artículo Texto
Lenguaje:English
Publicado: The Royal Society 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10320341/
https://www.ncbi.nlm.nih.gov/pubmed/37403484
http://dx.doi.org/10.1098/rsif.2023.0276
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author Zhang, Dongliang
Zhang, Chenghao
Ouyang, Qi
Tu, Yuhai
author_facet Zhang, Dongliang
Zhang, Chenghao
Ouyang, Qi
Tu, Yuhai
author_sort Zhang, Dongliang
collection PubMed
description Accurate and robust spatial orders are ubiquitous in living systems. In 1952, Turing proposed a general mechanism for pattern formation exemplified by a reaction–diffusion model with two chemical species in a large system. However, in small biological systems such as a cell, the existence of multiple Turing patterns and strong noise can lower the spatial order. Recently, a modified reaction–diffusion model with an additional chemical species is shown to stabilize the Turing pattern. Here, we study non-equilibrium thermodynamics of this three-species reaction–diffusion model to understand the relationship between energy cost and the performance of self-positioning. By using computational and analytical approaches, we show that beyond the onset of pattern formation the positioning error decreases as energy dissipation increases. In a finite system, we find that a specific Turing pattern exists only within a finite range of total molecule number. Energy dissipation broadens this range, which enhances the robustness of Turing pattern against molecule number fluctuations in living cells. The generality of these results is verified in a realistic model of the Muk system underlying DNA segregation in Escherichia coli, and testable predictions are made for the dependence of the accuracy and robustness of the spatial pattern on the ATP/ADP ratio.
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spelling pubmed-103203412023-07-06 Free energy dissipation enhances spatial accuracy and robustness of self-positioned Turing pattern in small biochemical systems Zhang, Dongliang Zhang, Chenghao Ouyang, Qi Tu, Yuhai J R Soc Interface Life Sciences–Physics interface Accurate and robust spatial orders are ubiquitous in living systems. In 1952, Turing proposed a general mechanism for pattern formation exemplified by a reaction–diffusion model with two chemical species in a large system. However, in small biological systems such as a cell, the existence of multiple Turing patterns and strong noise can lower the spatial order. Recently, a modified reaction–diffusion model with an additional chemical species is shown to stabilize the Turing pattern. Here, we study non-equilibrium thermodynamics of this three-species reaction–diffusion model to understand the relationship between energy cost and the performance of self-positioning. By using computational and analytical approaches, we show that beyond the onset of pattern formation the positioning error decreases as energy dissipation increases. In a finite system, we find that a specific Turing pattern exists only within a finite range of total molecule number. Energy dissipation broadens this range, which enhances the robustness of Turing pattern against molecule number fluctuations in living cells. The generality of these results is verified in a realistic model of the Muk system underlying DNA segregation in Escherichia coli, and testable predictions are made for the dependence of the accuracy and robustness of the spatial pattern on the ATP/ADP ratio. The Royal Society 2023-07-05 /pmc/articles/PMC10320341/ /pubmed/37403484 http://dx.doi.org/10.1098/rsif.2023.0276 Text en © 2023 The Authors. https://creativecommons.org/licenses/by/4.0/Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, provided the original author and source are credited.
spellingShingle Life Sciences–Physics interface
Zhang, Dongliang
Zhang, Chenghao
Ouyang, Qi
Tu, Yuhai
Free energy dissipation enhances spatial accuracy and robustness of self-positioned Turing pattern in small biochemical systems
title Free energy dissipation enhances spatial accuracy and robustness of self-positioned Turing pattern in small biochemical systems
title_full Free energy dissipation enhances spatial accuracy and robustness of self-positioned Turing pattern in small biochemical systems
title_fullStr Free energy dissipation enhances spatial accuracy and robustness of self-positioned Turing pattern in small biochemical systems
title_full_unstemmed Free energy dissipation enhances spatial accuracy and robustness of self-positioned Turing pattern in small biochemical systems
title_short Free energy dissipation enhances spatial accuracy and robustness of self-positioned Turing pattern in small biochemical systems
title_sort free energy dissipation enhances spatial accuracy and robustness of self-positioned turing pattern in small biochemical systems
topic Life Sciences–Physics interface
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10320341/
https://www.ncbi.nlm.nih.gov/pubmed/37403484
http://dx.doi.org/10.1098/rsif.2023.0276
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