Lyndon Koens

The passive diffusion of Leptospira interrogans.

Motivated by recent experimental measurements, the passive diffusion of the bacterium Leptospira interrogans is investigated theoretically. By approximating the cell shape as a straight helix and using the slender-body-theory approximation of Stokesian hydrodynamics, the resistance matrix of Leptospira is first determined numerically. The passive diffusion of the helical cell is then obtained computationally using a Langevin formulation which is sampled in time in a manner consistent with the experimental procedure. Our results are in excellent quantitative agreement with the experimental results with no adjustable parameters.

Hydrodynamic interactions between nearby slender filaments

Cellular biology abound with filaments interacting through fluids, from intracellular microtubules, to rotating flagella and beating cilia. While previous work has demonstrated the complexity of capturing nonlocal hydrodynamic interactions between moving filaments, the problem remains difficult theoretically. We show here that when filaments are closer to each other than their relevant length scale, the integration of hydrodynamic interactions can be approximately carried out analytically. This leads to a set of simplified local equations, illustrated on a simple model of two interacting filaments, which can be used to tackle theoretically a range of problems in biology and physics.

Perturbative behavior of a vortex in a trapped Bose-Einstein condensate

We derive a set of equations that describe the shape and behaviour of a single perturbed vortex line in a Bose-Einstein condensate. Through the use of a matched asymptotic expansion and a unique coordinate transform a relation for a vortexs velocity, anywhere along the line, is found in terms of the trapping, rotation, and distortion of the line at that location. This relation is then used to find a set of differential equations that give the lines specific shape and motion. This work corrects a previous similar derivation by Anatoly A. Svidzinsky and Alexander L. Fetter [Phys. Rev. A \textbf{62}, 063617 (2000)], and enables a comparison with recent numerical results.

Rotation of slender swimmers in isotropic-drag media

The drag anisotropy of slender filaments is a critical physical property allowing swimming in low-Reynolds number flows, and without it linear translation is impossible. Here we show that, in contrast, net rotation can occur under isotropic drag. We first demonstrate this result formally by considering the consequences of the force- and torque-free conditions on swimming bodies and we then illustrate it with two examples (a simple swimmers made of three rods and a model bacterium with two helical flagellar filaments). Our results highlight the different role of hydrodynamic forces in generating translational versus rotational propulsion.

Vibrations of a columnar vortex in a trapped Bose-Einstein condensate

We derive a governing equation for a Kelvin wave supported on a vortex line in a Bose-Einstein condensate, in a rotating cylindrically symmetric parabolic trap. From this solution the Kelvin wave dispersion relation is determined. In the limit of an oblate trap and in the absence of longitudinal trapping our results are consistent with previous work. We show that the derived Kelvin wave dispersion in the general case is in quantitative agreement with numerical calculations of the Bogoliubov spectrum and offer a significant improvement upon previous analytical work.

The boundary integral formulation of Stokes flows includes slender-body theory

The incompressible Stokes equations can classically be recast in a boundary integral (BI) representation, which provides a general method to solve low-Reynolds number problems analytically and computationally. Alternatively, one can solve the Stokes equations by using an appropriate distribution of flow singularities of the right strength within the boundary, a method particularly useful to describe the dynamics of long slender objects for which the numerical implementation of the BI representation becomes cumbersome. While the BI approach is a mathematical consequence of the Stokes equations, the singularity method involves making judicious guesses that can only be justified a posteriori. In this paper we use matched asymptotic expansions to derive an algebraically accurate slender-body theory directly from the BI representation able to handle arbitrary surface velocities and surface tractions. This expansion procedure leads to sets of uncoupled linear equations and to a single one-dimensional integral equation identical to that derived by Keller and Rubinow (1976) and Johnson (1979) using the singularity method. Hence we show that it is a mathematical consequence of the BI approach that the leading-order flow around a slender body can be represented using a distribution of singularities along its centreline. Furthermore when derived from either the single-layer or double-layer modified BI representation, general slender solutions are only possible in certain types of flow, in accordance with the limitations of these representations.

The swimming of a deforming helix

Abstract.Many microorganisms and artificial microswimmers use helical appendages in order to generate locomotion. Though often rotated so as to produce thrust, some species of bacteria such Spiroplasma, Rhodobacter sphaeroides and Spirochetes induce movement by deforming a helical-shaped body. Recently, artificial devices have been created which also generate motion by deforming their helical body in a non-reciprocal way (A. Mourran et al. Adv. Mater. 29, 1604825, 2017). Inspired by these systems, we investigate the transport of a deforming helix within a viscous fluid. Specifically, we consider a swimmer that maintains a helical centreline and a single handedness while changing its helix radius, pitch and wavelength uniformly across the body. We first discuss how a deforming helix can create a non-reciprocal translational and rotational swimming stroke and identify its principle direction of motion. We then determine the leading-order physics for helices with small helix radius before considering the general behaviour for different configuration parameters and how these swimmers can be optimised. Finally, we explore how the presence of walls, gravity, and defects in the centreline allow the helical device to break symmetries, increase its speed, and generate transport in directions not available to helices in bulk fluids.Graphical abstract