Journal
SOFT MATTER
Volume 17, Issue 4, Pages 893-902Publisher
ROYAL SOC CHEMISTRY
DOI: 10.1039/d0sm01595d
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Funding
- Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) [327154368 - SFB 1313, SPP 1726, HO1108/24-2]
- French National Research Agency (ANR)
- ANR Bacflow AAPG 2015
- Laboratoire dExcellence Physics Atom Light Mater'' (LabEx PALM) as part of the Investissements dAvenir'' program [ANR-10-LABX-0039-PALM]
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The study focuses on the transport of bacteria in a porous media modeled by a square channel with a cylindrical obstacle, using molecular dynamics simulations and lattice Boltzmann fluid. By varying the external flow strength, bacterial motility, and channel geometry, the research reveals the crucial interactions between bacteria and confining walls for the accumulation process.
We study the transport of bacteria in a porous media modeled by a square channel containing one cylindrical obstacle via molecular dynamics simulations coupled to a lattice Boltzmann fluid. Our bacteria model is a rod-shaped rigid body which is propelled by a force-free mechanism. To account for the behavior of living bacteria, the model also incorporates a run-and-tumble process. The model bacteria are capable of hydrodynamically interacting with both of the channel walls and the obstacle. This enables the bacteria to get reoriented when experiencing a shear-flow. We demonstrate that this model is capable of reproducing the bacterial accumulation on the rear side of an obstacle, as has recently been experimentally observed by [G. L. Mino, et al., Adv. Microbiol., 2018, 8, 451] using E. coli bacteria. By systematically varying the external flow strength and the motility of the bacteria, we resolve the interplay between the local flow strength and the swimming characteristics that lead to the accumulation. Moreover, by changing the geometry of the channel, we also reveal the important role of the interactions between the bacteria and the confining walls for the accumulation process.
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