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View article: Trajectories of polystyrene beads driven by a carpet of ameboid cells
Trajectories of polystyrene beads driven by a carpet of ameboid cells Open
Four MATLAB .mat files containing tracks of polystyrene beads driven by a monolayer carpet of Dictyostelium discoideum cells. This dataset contains data for four different bead sizes (for details see table below): 29 µm 46 µm 61 µm 100 µm …
View article: Trajectory data for bacterial motility in semi-solid agar
Trajectory data for bacterial motility in semi-solid agar Open
Description of data This directory contains the trajectory data of bacterial swimming experiments, using the soil bacterium Pseudomonas putida, in porous agar gels. The subdirectories named WT_025 and WT_03 refer to the trajectory data cor…
View article: Trajectory data for bacterial motility in semi-solid agar
Trajectory data for bacterial motility in semi-solid agar Open
Description of data This directory contains the trajectory data of bacterial swimming experiments, using the soil bacterium Pseudomonas putida, in porous agar gels. The subdirectories named WT_025 and WT_03 refer to the trajectory data cor…
View article: TrackScoPy: A Python toolbox for tracking and analyzing motility of micro-organisms from fluorescence microscopy videos
TrackScoPy: A Python toolbox for tracking and analyzing motility of micro-organisms from fluorescence microscopy videos Open
TrackScoPy is a Python-based toolbox for analyzing fluorescence microscopy time-lapse images of motile micro-organisms. It provides a full pipeline for preprocessing, multi-channel particle detection, tracking, trajectory linking, and cros…
View article: Bacterial swimming in porous gels exhibits intermittent run motility with active turns and mechanical trapping
Bacterial swimming in porous gels exhibits intermittent run motility with active turns and mechanical trapping Open
While bacterial motility has been well characterized in uniform liquids, only little is known about how bacteria propagate through complex environments, such as gel-like materials or porous media that are typically encountered in tissue or…
View article: A dissipative mass conserved reaction–diffusion system reveals switching between coexisting polar and oscillatory cell motility states
A dissipative mass conserved reaction–diffusion system reveals switching between coexisting polar and oscillatory cell motility states Open
Motile eukaryotic cells display distinct modes of migration that often occur within the same cell type. It remains unclear, however, whether transitions between the migratory modes require changes in external conditions, or whether the dif…
View article: Modeling how lamellipodia-driven cells maintain persistent migration and interact with external barriers
Modeling how lamellipodia-driven cells maintain persistent migration and interact with external barriers Open
Cell motility is fundamental to many biological processes, and cells exhibit a variety of migration patterns. Many motile cell types follow a universal law that connects their speed and persistency, a property that can originate from the i…
View article: Random walks of intermittently self-propelled particles
Random walks of intermittently self-propelled particles Open
Motivated by various recent experimental findings, we propose a dynamical model of intermittently self-propelled particles: active particles that recurrently switch between two modes of motion, namely an active run state and a turn state, …
View article: Bundling instability of lophotrichous bacteria
Bundling instability of lophotrichous bacteria Open
We present a mathematical model of lophotrichous bacteria, motivated by Pseudomonas putida, which swim through fluid by rotating a cluster of multiple flagella extended from near one pole of the cell body. Although the flagella rotate indi…
View article: Modelling how lamellipodia-driven cells maintain persistent migration and interact with external barriers
Modelling how lamellipodia-driven cells maintain persistent migration and interact with external barriers Open
Cell motility is fundamental to many biological processes, and cells exhibit a variety of migration patterns. Many motile cell types follow a universal law that connects their speed and persistency, a property that can originate from the i…
View article: Bundling instability of lophotrichous bacteria
Bundling instability of lophotrichous bacteria Open
We present a mathematical model of lophotrichous bacteria, motivated by Pseudomonas putida, which swim through fluid by rotating a cluster of multiple flagella extended from near one pole of the cell body. Although the flagella rotate indi…
View article: Chemically induced dislocation and mutation of essential cytoskeletal proteins: A case study focusing on Coronin-A
Chemically induced dislocation and mutation of essential cytoskeletal proteins: A case study focusing on Coronin-A Open
Actin is one of the most highly conserved proteins—the actin cytoskeleton or actin-like structures are found in all kingdoms of life. In this work, Coronin-A, a central player involved in actin dynamics, is considered as an example to comp…
View article: Intermittent Run Motility of Bacteria in Gels Exhibits Power-Law Distributed Dwell Times
Intermittent Run Motility of Bacteria in Gels Exhibits Power-Law Distributed Dwell Times Open
While bacterial swimming has been well characterized in uniform liquid environments, only little is known about how bacteria propagate through complex environments, such as gel-like matrices or porous media that are typically encountered i…
View article: The random walk of intermittently self-propelled particles
The random walk of intermittently self-propelled particles Open
Motivated by various recent experimental findings, we propose a dynamical model of intermittently self-propelled particles: active particles that recurrently switch between two modes of motion, namely an active run-state and a turn state, …
View article: A minimal physical model for curvotaxis driven by curved protein complexes at the cell’s leading edge
A minimal physical model for curvotaxis driven by curved protein complexes at the cell’s leading edge Open
Cells often migrate on curved surfaces inside the body, such as curved tissues, blood vessels, or highly curved protrusions of other cells. Recent in vitro experiments provide clear evidence that motile cells are affected by the curvature …
View article: Manipulation of artificial and living small objects by light driven diffusioosmotic flow
Manipulation of artificial and living small objects by light driven diffusioosmotic flow Open
Here we report on light-triggered generation of local flow utilizing a bio-compatible non-ionic photo-active surfactant. The mechanism is based on diffusioosmotic phenomenon where the gradient of relative concentration with respect to diff…
View article: Three-component contour dynamics model to simulate and analyze amoeboid cell motility in two dimensions
Three-component contour dynamics model to simulate and analyze amoeboid cell motility in two dimensions Open
Amoeboid cell motility is relevant in a wide variety of biomedical processes such as wound healing, cancer metastasis, and embryonic morphogenesis. It is characterized by pronounced changes of the cell shape associated with expansions and …
View article: Non-Gaussian displacements in active transport on a carpet of motile cells
Non-Gaussian displacements in active transport on a carpet of motile cells Open
We study the dynamics of micron-sized particles on a layer of motile cells. This cell carpet acts as an active bath that propels passive tracer particles via direct mechanical contact. The resulting nonequilibrium transport shows a crossov…
View article: Cargo Size Limits and Forces of Cell‐Driven Microtransport
Cargo Size Limits and Forces of Cell‐Driven Microtransport Open
The integration of motile cells into biohybrid microrobots offers unique properties such as sensitive responses to external stimuli, resilience, and intrinsic energy supply. Here, biohybrid cell–cargo systems that are driven by amoeboid Di…
View article: Stochastic Reaction-Diffusion Systems in Biophysics: Towards a Toolbox for Quantitative Model Evaluation
Stochastic Reaction-Diffusion Systems in Biophysics: Towards a Toolbox for Quantitative Model Evaluation Open
We develop a statistical toolbox for a quantitative model evaluation of stochastic reaction-diffusion systems modeling space-time evolution of biophysical quantities on the intracellular level. Starting from space-time data $X_N(t,x)$, as,…
View article: From actin waves to mechanism and back: How theory aids biological understanding
From actin waves to mechanism and back: How theory aids biological understanding Open
Actin dynamics in cell motility, division, and phagocytosis is regulated by complex factors with multiple feedback loops, often leading to emergent dynamic patterns in the form of propagating waves of actin polymerization activity that are…
View article: Cargo size limits and forces of cell-driven microtransport
Cargo size limits and forces of cell-driven microtransport Open
The integration of motile cells into biohybrid microrobots offers unique properties such as sensitive responses to external stimuli, resilience, and intrinsic energy supply. Here we study biohybrid microtransporters that are driven by amoe…
View article: A minimal physical model for curvotaxis driven by curved protein complexes at the cell’s leading edge
A minimal physical model for curvotaxis driven by curved protein complexes at the cell’s leading edge Open
Cells often migrate on curved surfaces inside the body, such as curved tissues, blood vessels or highly curved protrusions of other cells. Recent in-vitro experiments provide clear evidence that motile cells are affected by the curvature o…
View article: Black and gray box learning of amplitude equations: Application to phase field systems
Black and gray box learning of amplitude equations: Application to phase field systems Open
We present a data-driven approach to learning surrogate models for amplitude equations and illustrate its application to interfacial dynamics of phase field systems. In particular, we demonstrate learning effective partial differential equ…
View article: Role of the Two Flagellar Stators in Swimming Motility of Pseudomonas putida
Role of the Two Flagellar Stators in Swimming Motility of Pseudomonas putida Open
Because of its heterogeneous habitat, the soil bacterium Pseudomonas putida needs to swim efficiently under very different environmental conditions. In this paper, we knocked out the stators MotAB and MotCD to investigate their impact on t…
View article: Three-component contour dynamics model to simulate and analyze amoeboid cell motility
Three-component contour dynamics model to simulate and analyze amoeboid cell motility Open
Amoeboid cell motility is relevant in a wide variety of biomedical applications such as wound healing, cancer metastasis, and embryonic morphogenesis. It is characterized by pronounced changes of the cell shape associated with expansions a…
View article: Spontaneous transitions between amoeboid and keratocyte-like modes of migration
Spontaneous transitions between amoeboid and keratocyte-like modes of migration Open
The motility of adherent eukaryotic cells is driven by the dynamics of the actin cytoskeleton. Despite the common force-generating actin machinery, different cell types often show diverse modes of locomotion that differ in their shape dyna…
View article: Optimal Cargo Size for Active Diffusion of Biohybrid Microcarriers
Optimal Cargo Size for Active Diffusion of Biohybrid Microcarriers Open
Funder: \n Deutsche Forschungsgemeinschaft\n http://dx.doi.org/10.13039/501100001659