Sinking, merging and stationary plumes in a coupled chemotaxis-fluid model: a high-resolution numerical approach

• Published in: Journal of fluid mechanics Vol. 694; pp. 155 - 190
• Main Authors: Chertock, A., Fellner, K., Kurganov, A., Lorz, A., Markowich, P. A.
• Format: Journal Article
• Language: English
• Published: Cambridge, UK Cambridge University Press 10.03.2012
• Subjects: Bacteria; Bacteriology; Biological and medical sciences; Boundary conditions; Convection; Density; Dynamical systems; Fluid flow; Fluid mechanics; Fundamental and applied biological sciences. Psychology; Mathematical models; Microbiology; Motility, taxis; Navier-Stokes equations; Nonlinear dynamics; Plumes; Simulation; computational methods; bioconvection; micro-organism dynamics; Motility; Bacillus subtilis; Finite volume method; Bacillaceae; Chemotaxis; Modeling; Aquatic environment; Bacillales; Rayleigh Taylor instability; Bacteria; Numerical simulation; Microorganism; Finite difference method
• ISSN: 0022-1120; 1469-7645
• DOI: 10.1017/jfm.2011.534

Aquatic bacteria like Bacillus subtilis are heavier than water yet they are able to swim up an oxygen gradient and concentrate in a layer below the water surface, which will undergo Rayleigh–Taylor-type instabilities for sufficiently high concentrations. In the literature, a simplified chemotaxis–fluid system has been proposed as a model for bio-convection in modestly diluted cell suspensions. It couples a convective chemotaxis system for the oxygen-consuming and oxytactic bacteria with the incompressible Navier–Stokes equations subject to a gravitational force proportional to the relative surplus of the cell density compared to the water density. In this paper, we derive a high-resolution vorticity-based hybrid finite-volume finite-difference scheme, which allows us to investigate the nonlinear dynamics of a two-dimensional chemotaxis–fluid system with boundary conditions matching an experiment of Hillesdon et al. (Bull. Math. Biol., vol. 57, 1995, pp. 299–344). We present selected numerical examples, which illustrate (i) the formation of sinking plumes, (ii) the possible merging of neighbouring plumes and (iii) the convergence towards numerically stable stationary plumes. The examples with stable stationary plumes show how the surface-directed oxytaxis continuously feeds cells into a high-concentration layer near the surface, from where the fluid flow (recurring upwards in the space between the plumes) transports the cells into the plumes, where then gravity makes the cells sink and constitutes the driving force in maintaining the fluid convection and, thus, in shaping the plumes into (numerically) stable stationary states. Our numerical method is fully capable of solving the coupled chemotaxis–fluid system and enabling a full exploration of its dynamics, which cannot be done in a linearised framework.