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Many types of bacteria swim by rotating a bundle of helical filaments also called flagella. Each filament is driven by a rotary motor and a very flexible hook transmits the motor torque to the filament. We model it by discretizing…
Besides direct molecular interactions, proteins and nanoparticles embedded in or adsorbed to membranes experience indirect interactions that are mediated by the membranes. These membrane-mediated interactions arise from the membrane…
Motility is fundamental to the survival and proliferation of microorganisms. The E. coli bacterium propels itself using a bundle of rotating helical flagella. If one flagellum reverses its rotational direction, it leaves the bundle,…
The persistent character of the motion of active particles gives rise to accumulation at boundaries. I investigate the problem of run-and-tumble swimmers confined in a 1D box with hard walls, reporting expressions for the particles…
This study systematically investigates the dynamics of the bacterial transition from free-swimming to surface adhesion, a process characterized by both height $h$ and inclination angle $\Psi$. The surface entrapment process is divided into…
The current study presents a systematic investigation of the locomotion performance of a swimmer with a wide range of parameter settings. Two-dimensional simulations with the immersed boundary method are employed for the fluid-structure…
Many bacteria live in natural and clinical environments with abundant macromolecular polymers. Macromolecular fluids commonly display viscoelasticity and non-Newtonian rheological behavior; it is unclear how these complex-fluid properties…
There are many examples of driven and active matter systems containing particles that exhibit circular motion with different chiralities, such as swimming bacteria near surfaces or certain types of self-driven colloidal particles. Circular…
Particles kicked by external forces to produce mobility distinct from thermal diffusion are an iconic feature of the active matter problem. Here, we map this onto a minimal model for experiment and theory covering the wide time and length…
In the present work we simulate the basic two-dimensional dynamics of swarming E. coli bacteria on the surface of a moderately soft agar plate. Individual bacteria are modelled by self-propelled ridged bodies (agents), which interact with…
Using numerical simulations, we characterized the behavior of an elastic membrane immersed in an active fluid. Our findings reveal a nontrivial folding and re-expansion of the membrane that is controlled by the interplay of its resistance…
Motivated by the aim of understanding the effect of media heterogeneity on the swimming dynamics of flagellated bacteria, we study the rotation and swimming of rigid helices in dilute suspensions experimentally and theoretically. We first…
When the motion of a motile cell is observed closely, it appears erratic, and yet the combination of nonequilibrium forces and surfaces can produce striking examples of organization in microbial systems. While most of our current…
Turbulence is ubiquitous, from oceanic currents to small-scale biological and quantum systems. Self-sustained turbulent motion in microbial suspensions presents an intriguing example of collective dynamical behavior amongst the simplest…
Run-and-tumble is a basic model of persistent motion and a motility strategy widespread in micro-organisms and individual cells. In many natural settings, movement occurs in the presence of confinement. While accumulation at the surface has…
The role of activity on the hydrodynamic dispersion of bacteria in a model porous medium is studied by tracking thousands of bacteria in a microfluidic chip containing randomly placed pillars. We first evaluate the spreading dynamics of two…
To swim through a viscous fluid, a flagellated bacterium must overcome the fluid drag on its body by rotating a flagellum or a bundle of multiple flagella. Because the drag increases with the size of bacteria, it is expected theoretically…
A living cell actively generates traction forces on its environment with its actin cytoskeleton. These forces deform the cell elastic substrate which, in turn, affects the traction forces exerted by the cell and can consequently modify the…
Propagating spiral waves have been discovered in various chemical, biological and physical systems. Spiral waves in multicellular organisms are often associated with essential living functions. Although certain eukaryotic microorganisms…
We studied the swimming of \textit{Escherichia coli} bacteria in the vicinity of the critical point in a solution of the non-ionic surfactant \chem{C_{12}E_{5}} in buffer solution. In phase contrast microscopy, each swimming cell produces a…