Lukas Hupe, Yoav G. Pollack, Jonas Isensee, Aboutaleb Amiri, Ramin Golestanian, Philip Bittihn
{"title":"平滑分裂盘状细胞的最小模型","authors":"Lukas Hupe, Yoav G. Pollack, Jonas Isensee, Aboutaleb Amiri, Ramin Golestanian, Philip Bittihn","doi":"arxiv-2409.01959","DOIUrl":null,"url":null,"abstract":"Replication through cell division is one of the most fundamental processes of\nlife and a major driver of dynamics in systems ranging from bacterial colonies\nto embryogenesis, tissues and tumors. While regulation often plays a role in\nshaping self-organization, mounting evidence suggests that many biologically\nrelevant behaviors exploit principles based on a limited number of physical\ningredients, and particle-based models have become a popular platform to\nreconstitute and investigate these emergent dynamics. However, incorporating\ndivision into such models often leads to aberrant mechanical fluctuations that\nhamper physically meaningful analysis. Here, we present a minimal model\nfocusing on mechanical consistency during division. Cells are comprised of two\nnodes, overlapping disks which separate from each other during cell division,\nresulting in transient dumbbell shapes. Internal degrees of freedom, cell-cell\ninteractions and equations of motion are designed to ensure force continuity at\nall times, including through division, both for the dividing cell itself as\nwell as interaction partners, while retaining the freedom to define arbitrary\nanisotropic mobilities. As a benchmark, we also translate an established model\nof proliferating spherocylinders with similar dynamics into our theoretical\nframework. Numerical simulations of both models demonstrate force continuity of\nthe new disk cell model and quantify our improvements. We also investigate some\nbasic collective behaviors related to alignment and orientational order and\nfind consistency both between the models and with the literature. A reference\nimplementation of the model is freely available as a package in the Julia\nprogramming language based on $\\textit{InPartS.jl}$. Our model is ideally\nsuited for the investigation of mechanical observables such as velocities and\nstresses, and is easily extensible with additional features.","PeriodicalId":501040,"journal":{"name":"arXiv - PHYS - Biological Physics","volume":null,"pages":null},"PeriodicalIF":0.0000,"publicationDate":"2024-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"A minimal model of smoothly dividing disk-shaped cells\",\"authors\":\"Lukas Hupe, Yoav G. Pollack, Jonas Isensee, Aboutaleb Amiri, Ramin Golestanian, Philip Bittihn\",\"doi\":\"arxiv-2409.01959\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"Replication through cell division is one of the most fundamental processes of\\nlife and a major driver of dynamics in systems ranging from bacterial colonies\\nto embryogenesis, tissues and tumors. While regulation often plays a role in\\nshaping self-organization, mounting evidence suggests that many biologically\\nrelevant behaviors exploit principles based on a limited number of physical\\ningredients, and particle-based models have become a popular platform to\\nreconstitute and investigate these emergent dynamics. However, incorporating\\ndivision into such models often leads to aberrant mechanical fluctuations that\\nhamper physically meaningful analysis. Here, we present a minimal model\\nfocusing on mechanical consistency during division. Cells are comprised of two\\nnodes, overlapping disks which separate from each other during cell division,\\nresulting in transient dumbbell shapes. Internal degrees of freedom, cell-cell\\ninteractions and equations of motion are designed to ensure force continuity at\\nall times, including through division, both for the dividing cell itself as\\nwell as interaction partners, while retaining the freedom to define arbitrary\\nanisotropic mobilities. As a benchmark, we also translate an established model\\nof proliferating spherocylinders with similar dynamics into our theoretical\\nframework. Numerical simulations of both models demonstrate force continuity of\\nthe new disk cell model and quantify our improvements. We also investigate some\\nbasic collective behaviors related to alignment and orientational order and\\nfind consistency both between the models and with the literature. A reference\\nimplementation of the model is freely available as a package in the Julia\\nprogramming language based on $\\\\textit{InPartS.jl}$. Our model is ideally\\nsuited for the investigation of mechanical observables such as velocities and\\nstresses, and is easily extensible with additional features.\",\"PeriodicalId\":501040,\"journal\":{\"name\":\"arXiv - PHYS - Biological Physics\",\"volume\":null,\"pages\":null},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2024-09-03\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"arXiv - PHYS - Biological Physics\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/arxiv-2409.01959\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"arXiv - PHYS - Biological Physics","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/arxiv-2409.01959","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
A minimal model of smoothly dividing disk-shaped cells
Replication through cell division is one of the most fundamental processes of
life and a major driver of dynamics in systems ranging from bacterial colonies
to embryogenesis, tissues and tumors. While regulation often plays a role in
shaping self-organization, mounting evidence suggests that many biologically
relevant behaviors exploit principles based on a limited number of physical
ingredients, and particle-based models have become a popular platform to
reconstitute and investigate these emergent dynamics. However, incorporating
division into such models often leads to aberrant mechanical fluctuations that
hamper physically meaningful analysis. Here, we present a minimal model
focusing on mechanical consistency during division. Cells are comprised of two
nodes, overlapping disks which separate from each other during cell division,
resulting in transient dumbbell shapes. Internal degrees of freedom, cell-cell
interactions and equations of motion are designed to ensure force continuity at
all times, including through division, both for the dividing cell itself as
well as interaction partners, while retaining the freedom to define arbitrary
anisotropic mobilities. As a benchmark, we also translate an established model
of proliferating spherocylinders with similar dynamics into our theoretical
framework. Numerical simulations of both models demonstrate force continuity of
the new disk cell model and quantify our improvements. We also investigate some
basic collective behaviors related to alignment and orientational order and
find consistency both between the models and with the literature. A reference
implementation of the model is freely available as a package in the Julia
programming language based on $\textit{InPartS.jl}$. Our model is ideally
suited for the investigation of mechanical observables such as velocities and
stresses, and is easily extensible with additional features.