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  1. Abstract

    Directed motility enables swimming microbes to navigate their environment for resources via chemo-, photo-, and magneto-taxis. However, directed motility competes with fluid flow in porous microbial habitats, affecting biofilm formation and disease transmission. Despite this broad importance, a microscopic understanding of how directed motility impacts the transport of microswimmers in flows through constricted pores remains unknown. Through microfluidic experiments, we show that individual magnetotactic bacteria directed upstream through pores display three distinct regimes, whereby cells swim upstream, become trapped within a pore, or are advected downstream. These transport regimes are reminiscent of the electrical conductivity of a diode and are accurately predicted by a comprehensive Langevin model. The diode-like behavior persists at the pore scale in geometries of higher dimension, where disorder impacts conductivity at the sample scale by extending the trapping regime over a broader range of flow speeds. This work has implications for our understanding of the survival strategies of magnetotactic bacteria in sediments and for developing their use in drug delivery applications in vascular networks.

     
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  2. Abstract Motility is a fundamental survival strategy of bacteria to navigate porous environments, where they mediate essential biogeochemical processes in quiescent wetlands and sediments. However, a comprehensive understanding of the mechanisms regulating self-transport in the confined interstices of porous media is lacking, and determining the interactions between cells and surfaces of the solid matrix becomes paramount. Here, we precisely track the movement of bacteria ( Magnetococcus marinus ) through a series of microfluidic porous media with broadly varying geometries and show how successive scattering events from solid surfaces decorrelate cell motion. Ordered versus disordered media impact the cells’ motility over short ranges, but their large-scale transport properties are regulated by the cutoff of their persistent motility. An effective mean free path is established as the key geometrical parameter controlling cell transport, and we implement a theoretical model that universally predicts the effective cell diffusion for the diverse geometries studied here. These results aid in our understanding of the physical ecology of swimming cells, and their role in environmental and health hazards in stagnant porous media. 
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    Free, publicly-accessible full text available December 1, 2024
  3. Microfluidic experiments and numerical simulations are used to study dispersion in viscoelastic fluid flow through porous media, which we show can be understood through the Lagrangian stretching field that dynamically guides transport.

     
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    Free, publicly-accessible full text available September 13, 2024
  4. Viscoelastic flows are pervasive in a host of natural and industrial processes, where the emergence of nonlinear and time-dependent dynamics regulates flow resistance, energy consumption, and particulate dispersal. Polymeric stress induced by the advection and stretching of suspended polymers feeds back on the underlying fluid flow, which ultimately dictates the dynamics, instability, and transport properties of viscoelastic fluids. However, direct experimental quantification of the stress field is challenging, and a fundamental understanding of how Lagrangian flow structure regulates the distribution of polymeric stress is lacking. In this work, we show that the topology of the polymeric stress field precisely mirrors the Lagrangian stretching field, where the latter depends solely on flow kinematics. We develop a general analytical expression that directly relates the polymeric stress and stretching in weakly viscoelastic fluids for both nonlinear and unsteady flows, which is also extended to special cases characterized by strong kinematics. Furthermore, numerical simulations reveal a clear correlation between the stress and stretching field topologies for unstable viscoelastic flows across a broad range of geometries. Ultimately, our results establish a connection between the Eulerian stress field and the Lagrangian structure of viscoelastic flows. This work provides a simple framework to determine the topology of polymeric stress directly from readily measurable flow field data and lays the foundation for directly linking the polymeric stress to flow transport properties. 
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  5. Complex and active fluids find broad applications in flows through porous materials. Nontrivial rheology can couple to porous microstructure leading to surprising flow patterns and associated transport properties in geophysical, biological, and industrial systems. Viscoelastic instabilities are highly sensitive to pore geometry and can give rise to chaotic velocity fluctuations. A number of recent studies have begun to untangle how the pore-scale geometry influences the sample-scale flow topology and the resulting dispersive transport properties of these complex systems. Beyond classical rheological properties, active colloids and swimming cells exhibit a range of unique properties, including reduced effective viscosity, collective motion, and random walks, that present novel challenges to understanding their mechanics and transport in porous media flows. This review article aims to provide a brief overview of essential, fundamental concepts followed by an in-depth summary of recent developments in this rapidly evolving field. The chosen topics are motivated by applications, and new opportunities for discovery are highlighted.

     
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  6. Swimming spermatozoa from diverse organisms often have very similar morphologies, yet different motilities as a result of differences in the flagellar waveforms used for propulsion. The origin of these differences has remained largely unknown. Using high-speed video microscopy and mathematical analysis of flagellar shape dynamics, we quantitatively compare sperm flagellar waveforms from marine invertebrates to humans by means of a novel phylokinematic tree. This new approach revealed that genetically dissimilar sperm can exhibit strikingly similar flagellar waveforms and identifies two dominant flagellar waveforms among the deuterostomes studied here, corresponding to internal and external fertilizers. The phylokinematic tree shows marked discordance from the phylogenetic tree, indicating that physical properties of the fluid environment, more than genetic relatedness, act as an important selective pressure in shaping the evolution of sperm motility. More broadly, this work provides a physical axis to complement morphological and genetic studies to understand evolutionary relationships. 
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