arXiv subjects

Angelika Manhart

Publications and source records attributed to Angelika Manhart.

11 recordsLinked to original sources

arXiv2022

How environment affects active particle swarms: a case study

We investigate the collective motion of self-propelled agents in an environment filled with obstacles that are tethered to fixed positions via springs. The active particles are able to modify the environment by moving the obstacles through repulsion forces. This creates feedback interactions between the particles and the obstacles from which a breadth of patterns emerges (trails, band, clusters, honey-comb structures,...). We will focus on a discrete model first introduced in [Aceves2020] and derived into a continuum PDE model. As a first major novelty, we perform an in-depth investigation of pattern formation of the discrete and continuum models in 2D: we provide phase-diagrams and determine the key mechanisms for bifurcations to happen using linear stability analysis. As a result, we discover that the agent-agent repulsion, the agent-obstacle repulsion and the obstacle's spring stiffness are the key forces in the appearance of patterns, while alignment forces between the particles play a secondary role. The second major novelty lies in the development of an innovative methodology to compare discrete and continuum models that we apply here to perform an in-depth analysis of the agreement between the discrete and continuum models.

math-ph↗

arXiv2020

Kinetic Modelling of Colonies of Myxobacteria

A new kinetic model for the dynamics of myxobacteria colonies on flat surfaces is derived formally, and first analytical and numerical results are presented. The model is based on the assumption of hard binary collisions of two different types: alignment and reversal. We investigate two different versions: a) realistic rod-shaped bacteria and b) artificial circular shaped bacteria called Maxwellian myxos in reference to the similar simplification of the gas dynamics Boltzmann equation for Maxwellian molecules. The sum of the corresponding collision operators produces relaxation towards nematically aligned equilibria, i.e. two groups of bacteria polarized in opposite directions. For the spatially homogeneous model a global existence and uniqueness result is proved as well as exponential decay to equilibrium for special initial conditions and for Maxwellian myxos. Only partial results are available for the rod-shaped case. These results are illustrated by numerical simulations, and a formal discussion of the macroscopic limit is presented.

math.AP↗

arXiv2020

Large-scale dynamics of self-propelled particles moving through obstacles: model derivation and pattern formation

We model and study the patterns created through the interaction of collectively moving self-propelled particles (SPPs) and elastically tethered obstacles. Simulations of an individual-based model reveal at least three distinct large-scale patterns: travelling bands, trails and moving clusters. This motivates the derivation of a macroscopic partial differential equations model for the interactions between the self-propelled particles and the obstacles, for which we assume large tether stiffness. The result is a coupled system of non-linear, non-local partial differential equations. Linear stability analysis shows that patterning is expected if the interactions are strong enough and allows for the predictions of pattern size from model parameters. The macroscopic equations reveal that the obstacle interactions induce short-ranged SPP aggregation, irrespective of whether obstacles and SPPs are attractive or repulsive.

math.AP↗

arXiv2020

Analyzing Collective Motion with Machine Learning and Topology

We use topological data analysis and machine learning to study a seminal model of collective motion in biology [D'Orsogna et al., Phys. Rev. Lett. 96 (2006)]. This model describes agents interacting nonlinearly via attractive-repulsive social forces and gives rise to collective behaviors such as flocking and milling. To classify the emergent collective motion in a large library of numerical simulations and to recover model parameters from the simulation data, we apply machine learning techniques to two different types of input. First, we input time series of order parameters traditionally used in studies of collective motion. Second, we input measures based in topology that summarize the time-varying persistent homology of simulation data over multiple scales. This topological approach does not require prior knowledge of the expected patterns. For both unsupervised and supervised machine learning methods, the topological approach outperforms the one that is based on traditional order parameters.

math.AT↗

arXiv2019

Centering and symmetry breaking in confined contracting actomyosin networks

Centering and decentering of cellular components is essential for internal organization of cells and their ability to perform basic cellular functions such as division and motility. How cells achieve proper localization of their components is still not well-understood, especially in large cells such as oocytes. Here, we study actin-based positioning mechanisms in artificial cells with persistently contracting actomyosin networks, generated by encapsulating cytoplasmic Xenopus egg extracts into cell-sized water-in-oil droplets. We observe size-dependent localization of the contraction center, with a symmetric configuration in larger cells and a polar one in smaller cells. In the symmetric state, the contraction center is actively centered, via a hydrodynamic mechanism based on Darcy friction between the contracting network and the surrounding cytoplasm. During symmetry breaking, transient attachments to the cell boundary drive the contraction center to a polar location near the droplet boundary. Our findings demonstrate a robust, yet tunable, mechanism for subcellular localization.

physics.bio-ph↗

arXiv2018

An age-structured continuum model for myxobacteria

Myxobacteria are social bacteria, that can glide in 2D and form counter-propagating, interacting waves. Here we present a novel age-structured, continuous macroscopic model for the movement of myxobacteria. The derivation is based on microscopic interaction rules that can be formulated as a particle-based model and set within the SOH (Self-Organized Hydrodynamics) framework. The strength of this combined approach is that microscopic knowledge or data can be incorporated easily into the particle model, whilst the continuous model allows for easy numerical analysis of the different effects. However we found that the derived macroscopic model lacks a diffusion term in the density equations, which is necessary to control the number of waves, indicating that a higher order approximation during the derivation is crucial. Upon ad-hoc addition of the diffusion term, we found very good agreement between the age-structured model and the biology. In particular we analyzed the influence of a refractory (insensitivity) period following a reversal of movement. Our analysis reveals that the refractory period is not necessary for wave formation, but essential to wave synchronization, indicating separate molecular mechanisms.

q-bio.CB↗

arXiv2018

Counter-propagating waves in a system of transport-reaction equations

Hyperbolic transport-reaction equations are abundant in the description of movement of motile organisms. Here, we focus on system of four coupled transport-reaction equations that arises from an age-structuring of a species of turning individuals. The highlight consists of the explicit construction and characterization of counter-propagating traveling waves, patterns which have been observed in bacterial colonies. Stability analysis reveals conditions for the wave formation as well as pulsating-in-time spatially constant solutions.

math.AP↗

arXiv2015

Mathematical Modeling of Myosin Induced Bistability of Lamellipodial Fragments

For various cell types and for lamellipodial fragments on flat surfaces, externally induced and spontaneous transitions between symmetric nonmoving states and polarized migration have been observed. This behavior is indicative of bistability of the cytoskeleton dynamics. In this work, the Filament Based Lamellipodium Model (FBLM), a two-dimensional, anisotropic, two-phase continuum model for the dynamics of the actin filament network in lamellipodia, is extended by a new description of actin-myosin interaction. For appropriately chosen parameter values, the resulting model has bistable dynamics with stable states showing the qualitative features observed in experiments. This is demonstrated by numerical simulations and by an analysis of a strongly simplified version of the FBLM with rigid filaments and planar lamellipodia at the cell front and rear.

q-bio.CB↗

arXiv2015

Decay to equilibrium of the filament end density along the leading edge of the lamellipodium

A model for the dynamics of actin filament ends along the leading edge of the lamellipodium is analyzed. It contains accounts of nucleation by branching, of deactivation by capping, and of lateral flow along the leading edge by polymerization. A nonlinearity arises from a Michaelis-Menten type modeling of the branching process. For branching rates large enough compared to capping rates, the existence and stability of nontrivial steady states is investigated. The main result is exponential convergence to nontrivial steady states, proven by investigating the decay of an appropriate Lyapunov functional.

math.AP↗

arXiv2015

A continuum model for nematic alignment of self-propelled particles

A continuum model for a population of self-propelled particles interacting through nematic alignment is derived from an individual-based model. The methodology consists of introducing a hydrodynamic scaling of the corresponding mean-field kinetic equation. The resulting perturbation problem is solved thanks to the concept of generalized collision invariants. It yields a hyperbolic but non-conservative system of equations for the nematic mean direction of the flow and the densities of particles flowing parallel or anti-parallel to this mean direction. Diffusive terms are introduced under a weakly non-local interaction assumption and the diffusion coefficient is proven to be positive. An application to the modeling of myxobacteria is outlined.

math.AP↗

arXiv2015

An Extended Filament Based Lamellipodium Model Produces Various Moving Cell Shapes in the Presence of Chemotactic Signals

The Filament Based Lamellipodium Model (FBLM) is a two-phase two-dimensional continuum model, describing the dynamcis of two interacting families of locally parallel actin filaments (C.Schmeiser and D.Oelz, How do cells move? Mathematical modeling of cytoskeleton dynamics and cell migration. Cell mechanics: from single scale-based models to multiscale modeling. Chapman and Hall, 2010). It contains accounts of the filaments' bending stiffness, of adhesion to the substrate, and of cross-links connecting the two families. An extension of the model is presented with contributions from nucleation of filaments by branching, from capping, from contraction by actin-myosin interaction, and from a pressure-like repulsion between parallel filaments due to Coulomb interaction. The effect of a chemoattractant is described by a simple signal transduction model influencing the polymerization speed. Simulations with the extended model show its potential for describing various moving cell shapes, depending on the signal transduction procedure, and for predicting transients between nonmoving and moving states as well as changes of direction.

q-bio.CB↗