Stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming
International audience Protoplasmic streaming in plant cells is directly visible in the cases of Chara corallina and Nitella flexilis , and this streaming is understood to play a role in the transport of biological materials. For this reason, related studies have focused on molecular transportation...
Published in: | Physics of Fluids |
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ftecolecentrlyon:oai:HAL:hal-03093645v1 2024-06-23T07:54:49+00:00 Stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming Egorov, Vladislav Maksimova, Olga Andreeva-Sussin, Irina Koibuchi, Hiroshi Hongo, Satoshi Nagahiro, Shinichiro Ikai, Toshiyuki Nakayama, Madoka Noro, Shuta Uchimoto, Tetsuya Rieu, Jean-Paul Cherepovets State University Peter the Great St. Petersburg Polytechnic University (SPbPU) National Institute of Technology (KOSEN) ELyTMaX École Centrale de Lyon (ECL) Université de Lyon-Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon) Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Tohoku University Sendai -Centre National de la Recherche Scientifique (CNRS) Institute of Fluid Sciences Sendai (IFS) Tohoku University Sendai iLM - Biophysique (iLM - BIOPHYSIQUE) Institut Lumière Matière Villeurbanne (ILM) Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS) 2020-12-01 https://hal.science/hal-03093645 https://hal.science/hal-03093645/document https://hal.science/hal-03093645/file/5.0019225.pdf https://doi.org/10.1063/5.0019225 en eng HAL CCSD American Institute of Physics info:eu-repo/semantics/altIdentifier/arxiv/2006.12067 info:eu-repo/semantics/altIdentifier/doi/10.1063/5.0019225 hal-03093645 https://hal.science/hal-03093645 https://hal.science/hal-03093645/document https://hal.science/hal-03093645/file/5.0019225.pdf ARXIV: 2006.12067 doi:10.1063/5.0019225 info:eu-repo/semantics/OpenAccess ISSN: 1070-6631 EISSN: 1089-7666 Physics of Fluids https://hal.science/hal-03093645 Physics of Fluids, 2020, 32 (12), pp.121902. ⟨10.1063/5.0019225⟩ Cell structure Partial differential equations Fluid dynamics simulation Computer simulation Brownian motion Cell membranes Stochastic processes Navier Stokes equations Langevin dynamics Molecular motor [SPI]Engineering Sciences [physics] [CHIM]Chemical Sciences [PHYS]Physics [physics] info:eu-repo/semantics/article Journal articles 2020 ftecolecentrlyon https://doi.org/10.1063/5.0019225 2024-05-29T23:37:05Z International audience Protoplasmic streaming in plant cells is directly visible in the cases of Chara corallina and Nitella flexilis , and this streaming is understood to play a role in the transport of biological materials. For this reason, related studies have focused on molecular transportation from a fluid mechanics viewpoint. However, the experimentally observed distribution of the velocity along the flow direction x, which exhibits two peaks at V x = 0 and at a finite V x (≠0), remains to be studied. In this paper, we numerically study whether this behavior of the flow field can be simulated by a 2D stochastic Navier–Stokes (NS) equation for Couette flow in which a random Brownian force is assumed. We present the first numerical evidence that these peaks are reproduced by the stochastic NS equation, which implies that the Brownian motion of the fluid particles plays an essential role in the emergence of these peaks in the velocity distribution. We also find that the position of the peak at V x (≠0) moves with the variation in the strength D of the random Brownian force, which also changes depending on physical parameters such as the kinematic viscosity, boundary velocity, and diameter of the plant cells.I. INTROD Article in Journal/Newspaper Nitella flexilis Portail HAL - Ecole Centrale de Lyon Physics of Fluids 32 12 121902 |
institution |
Open Polar |
collection |
Portail HAL - Ecole Centrale de Lyon |
op_collection_id |
ftecolecentrlyon |
language |
English |
topic |
Cell structure Partial differential equations Fluid dynamics simulation Computer simulation Brownian motion Cell membranes Stochastic processes Navier Stokes equations Langevin dynamics Molecular motor [SPI]Engineering Sciences [physics] [CHIM]Chemical Sciences [PHYS]Physics [physics] |
spellingShingle |
Cell structure Partial differential equations Fluid dynamics simulation Computer simulation Brownian motion Cell membranes Stochastic processes Navier Stokes equations Langevin dynamics Molecular motor [SPI]Engineering Sciences [physics] [CHIM]Chemical Sciences [PHYS]Physics [physics] Egorov, Vladislav Maksimova, Olga Andreeva-Sussin, Irina Koibuchi, Hiroshi Hongo, Satoshi Nagahiro, Shinichiro Ikai, Toshiyuki Nakayama, Madoka Noro, Shuta Uchimoto, Tetsuya Rieu, Jean-Paul Stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming |
topic_facet |
Cell structure Partial differential equations Fluid dynamics simulation Computer simulation Brownian motion Cell membranes Stochastic processes Navier Stokes equations Langevin dynamics Molecular motor [SPI]Engineering Sciences [physics] [CHIM]Chemical Sciences [PHYS]Physics [physics] |
description |
International audience Protoplasmic streaming in plant cells is directly visible in the cases of Chara corallina and Nitella flexilis , and this streaming is understood to play a role in the transport of biological materials. For this reason, related studies have focused on molecular transportation from a fluid mechanics viewpoint. However, the experimentally observed distribution of the velocity along the flow direction x, which exhibits two peaks at V x = 0 and at a finite V x (≠0), remains to be studied. In this paper, we numerically study whether this behavior of the flow field can be simulated by a 2D stochastic Navier–Stokes (NS) equation for Couette flow in which a random Brownian force is assumed. We present the first numerical evidence that these peaks are reproduced by the stochastic NS equation, which implies that the Brownian motion of the fluid particles plays an essential role in the emergence of these peaks in the velocity distribution. We also find that the position of the peak at V x (≠0) moves with the variation in the strength D of the random Brownian force, which also changes depending on physical parameters such as the kinematic viscosity, boundary velocity, and diameter of the plant cells.I. INTROD |
author2 |
Cherepovets State University Peter the Great St. Petersburg Polytechnic University (SPbPU) National Institute of Technology (KOSEN) ELyTMaX École Centrale de Lyon (ECL) Université de Lyon-Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon) Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Tohoku University Sendai -Centre National de la Recherche Scientifique (CNRS) Institute of Fluid Sciences Sendai (IFS) Tohoku University Sendai iLM - Biophysique (iLM - BIOPHYSIQUE) Institut Lumière Matière Villeurbanne (ILM) Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL) Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS) |
format |
Article in Journal/Newspaper |
author |
Egorov, Vladislav Maksimova, Olga Andreeva-Sussin, Irina Koibuchi, Hiroshi Hongo, Satoshi Nagahiro, Shinichiro Ikai, Toshiyuki Nakayama, Madoka Noro, Shuta Uchimoto, Tetsuya Rieu, Jean-Paul |
author_facet |
Egorov, Vladislav Maksimova, Olga Andreeva-Sussin, Irina Koibuchi, Hiroshi Hongo, Satoshi Nagahiro, Shinichiro Ikai, Toshiyuki Nakayama, Madoka Noro, Shuta Uchimoto, Tetsuya Rieu, Jean-Paul |
author_sort |
Egorov, Vladislav |
title |
Stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming |
title_short |
Stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming |
title_full |
Stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming |
title_fullStr |
Stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming |
title_full_unstemmed |
Stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming |
title_sort |
stochastic fluid dynamics simulations of the velocity distribution in protoplasmic streaming |
publisher |
HAL CCSD |
publishDate |
2020 |
url |
https://hal.science/hal-03093645 https://hal.science/hal-03093645/document https://hal.science/hal-03093645/file/5.0019225.pdf https://doi.org/10.1063/5.0019225 |
genre |
Nitella flexilis |
genre_facet |
Nitella flexilis |
op_source |
ISSN: 1070-6631 EISSN: 1089-7666 Physics of Fluids https://hal.science/hal-03093645 Physics of Fluids, 2020, 32 (12), pp.121902. ⟨10.1063/5.0019225⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/arxiv/2006.12067 info:eu-repo/semantics/altIdentifier/doi/10.1063/5.0019225 hal-03093645 https://hal.science/hal-03093645 https://hal.science/hal-03093645/document https://hal.science/hal-03093645/file/5.0019225.pdf ARXIV: 2006.12067 doi:10.1063/5.0019225 |
op_rights |
info:eu-repo/semantics/OpenAccess |
op_doi |
https://doi.org/10.1063/5.0019225 |
container_title |
Physics of Fluids |
container_volume |
32 |
container_issue |
12 |
container_start_page |
121902 |
_version_ |
1802647094496854016 |