4.7 Article

Model of fasciculation and sorting in mixed populations of axons

期刊

PHYSICAL REVIEW E
卷 84, 期 2, 页码 -

出版社

AMER PHYSICAL SOC
DOI: 10.1103/PhysRevE.84.021908

关键词

-

资金

  1. FOM Institute AMOLF
  2. Center for Neuroscience (Czech Republic) [LC554]
  3. [AV0Z50110509]

向作者/读者索取更多资源

We extend a recently proposed model [Chaudhuri et al., Europhys. Lett. 87, 20003 (2009)] aiming to describe the formation of fascicles of axons during neural development. The growing axons are represented as paths of interacting directed random walkers in two spatial dimensions. To mimic turnover of axons, whole paths are removed and new walkers are injected with specified rates. In the simplest version of the model, we use strongly adhesive short-range inter-axon interactions that are identical for all pairs of axons. We generalize the model to adhesive interactions of finite strengths and to multiple types of axons with type-specific interactions. The dynamic steady state is characterized by the position-dependent distribution of fascicle size and fascicle composition. With distance in the direction of axon growth, the mean fascicle size and emergent time scales grow monotonically, while the degree of sorting of fascicles by axon type has a maximum at a finite distance. To understand the emergence of slow time scales, we develop an analytical framework to analyze the interaction between neighboring fascicles.

作者

我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。

评论

主要评分

4.7
评分不足

次要评分

新颖性
-
重要性
-
科学严谨性
-
评价这篇论文

推荐

Article Mechanics

Active Brownian particle in harmonic trap: exact computation of moments, and re-entrant transition

Debasish Chaudhuri, Abhishek Dhar

Summary: By studying active Brownian particles within a harmonic trap, the exact time dependence of moments can be evaluated using a Laplace transform approach. The kurtosis of displacement is calculated, showing differences between active steady state properties and equilibrium Gaussian form. The kurtosis increases with activity to asymptotic saturation, but varies non-monotonically with trap-stiffness, capturing observed active-to-passive re-entrant behavior.

JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT (2021)

Article Materials Science, Multidisciplinary

Filament-motor protein system under loading: instability and limit cycle oscillations

Amir Shee, Subhadip Ghosh, Debasish Chaudhuri

Summary: This study investigates the dynamics of a rigid filament in a motor protein assay under external loading, as well as the effects of motor protein activity and quantity on system stability. Through stability analysis and numerical simulations, it was found that the system exhibits different behaviors under different loading conditions, including transitions from stability to instability and the emergence of stable limit cycle oscillations.

SOFT MATERIALS (2021)

Article Mechanics

Active Brownian motion with speed fluctuations in arbitrary dimensions: exact calculation of moments and dynamical crossovers

Amir Shee, Debasish Chaudhuri

Summary: The motion of an active Brownian particle with speed fluctuations in d-dimensions is considered, along with translational and orientational diffusion, using an Ornstein-Uhlenbeck process for active speed generation. An exact time dependence evaluation of all relevant dynamical moments is conducted using a Laplace transform approach based on the Fokker-Planck equation method. Analytical predictions are compared with numerical simulations to analyze dynamical crossovers, demonstrating positive and negative deviations in kurtosis of displacement at intermediate times based on the dominance of speed and orientational fluctuations.

JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT (2022)

Article Physics, Multidisciplinary

Extension and dynamical phases in random walkers depositing and following chemical trails

Subhashree Subhrasmita Khuntia, Abhishek Chaudhuri, Debasish Chaudhuri

Summary: Active walker models are effective in understanding the evolution of biological systems. This study proposes a simple model of a random walker, investigates the influence of the walker on its local environment and the subsequent motion of the walker. The study also explores the structural transitions of the walker's trajectory and the dynamics of the mean-squared displacement.
Article Chemistry, Physical

Cooperation and competition in the collective drive by motor proteins: mean active force, fluctuations, and self-load

Chitrak Karan, Debasish Chaudhuri

Summary: We study the motion of a bio-filament driven collectively by motor proteins that irreversibly attach to a substrate and undergo stochastic attachment-detachment with the filament, resulting in a directed force. By using analytical theory and numerical simulations, we investigate the dependence of the mean directed force and force correlations on the parameters of individual motor proteins. The effective Langevin description for the filament motion provides information on mean-squared displacement, asymptotic diffusion constant, and mobility, allowing the determination of an effective temperature. We further demonstrate how competition between motor protein extensions generates a self-load on the filament, which can be described in terms of the effective temperature and affects the filament motion.

SOFT MATTER (2023)

Article Physics, Fluids & Plasmas

Self-propulsion with speed and orientation fluctuation: Exact computation of moments and dynamical bistabilities in displacement

Amir Shee, Debasish Chaudhuri

Summary: This study investigates the influence of active speed fluctuations on the dynamics of a one-dimensional active Brownian particle. Exact expressions for time-dependent dynamical moments are obtained using the Laplace transform of the Fokker-Planck equation. The results demonstrate multiple dynamical crossovers and dynamical anisotropy-induced subdiffusive scaling and changes in kurtosis. Numerical simulations also reveal two crossovers in the probability distribution of particle displacement, controlled by speed fluctuations and persistence.

PHYSICAL REVIEW E (2022)

Meeting Abstract Biophysics

Impact of cytosolic crowders on the morphology of bacterial chromosomes

Amit Kumar, Pinaki Swain, Bela Mulder, Debasish Chaudhuri

BIOPHYSICAL JOURNAL (2022)

Article Chemistry, Physical

Pattern formation, localized and running pulsation on active spherical membranes

Subhadip Ghosh, Sashideep Gutti, Debasish Chaudhuri

Summary: This study focuses on the active force generation by an actin-myosin cortex coupled to a cell membrane, and its role in cell deformation, environmental response, motility, and division. Through the coupled evolution of fields, linear stability analysis, and numerical calculations, the researchers reveal the instability of a spherical membrane towards pattern formation, localized pulsation, and running pulsation between poles when activity overcomes stabilizing factors like surface tension and bending rigidity.

SOFT MATTER (2021)

Article Chemistry, Physical

A semiflexible polymer in a gliding assay: reentrant transition, role of turnover and activity

Amir Shee, Nisha Gupta, Abhishek Chaudhuri, Debasish Chaudhuri

Summary: This study investigates the movement of an extensible semiflexible filament in two dimensions under the influence of motor proteins explicitly represented as active harmonic linkers. The filament undergoes a phase transition from an open chain to a spiral conformation, with reentrant behavior observed in both active extension and turnover processes. The orientational dynamics captures the rotation of spirals, with correlation time decaying with activity following a power law.

SOFT MATTER (2021)

Article Chemistry, Physical

Two-step melting of the Weeks-Chandler-Anderson system in two dimensions

Shubhendu Shekhar Khali, Dipanjan Chakraborty, Debasish Chaudhuri

Summary: The detailed numerical simulation study of a two-dimensional system interacting via the Weeks-Chandler-Anderson potential reveals a two-step melting process: continuous melting from solid to hexatic phase, followed by a first-order melting from hexatic to liquid phase. The solid-hexatic melting is consistent with the Berezinskii-Kosterlitz-Thouless-Halperin-Nelson-Young (BKTHNY) scenario while the hexatic-liquid melting displays defect-strings formed at the interfaces.

SOFT MATTER (2021)

Article Chemistry, Physical

Active Brownian particles: mapping to equilibrium polymers and exact computation of moments

Amir Shee, Abhishek Dhar, Debasish Chaudhuri

SOFT MATTER (2020)

Article Chemistry, Physical

A structure-dynamics relationship in ratcheted colloids: resonance melting, dislocations, and defect clusters

Shubhendu Shekhar Khali, Dipanjan Chakraborty, Debasish Chaudhuri

SOFT MATTER (2020)

Article Chemistry, Physical

Re-entrant phase separation in nematically aligning active polar particles

Biplab Bhattacherjee, Debasish Chaudhuri

SOFT MATTER (2019)

Article Chemistry, Physical

Confinement and crowding control the morphology and dynamics of a model bacterial chromosome

Pinaki Swain, Bela M. Mulder, Debasish Chaudhuri

SOFT MATTER (2019)

Article Physics, Fluids & Plasmas

Morphological and dynamical properties of semiflexible filaments driven by molecular motors

Nisha Gupta, Abhishek Chaudhuri, Debasish Chaudhuri

PHYSICAL REVIEW E (2019)

暂无数据