Experimental characterization of the PT asymmetry with balanced inflow and outflow at different Reynolds numbers

This research focused on characterizing the PT asymmetry with balanced inflow and outflow conditions at different Reynolds number using experimental method. The characterization process utilized PIV data to explore the relationship between PT asymmetry and Reynolds number in two different experiments. In the first experiment, balanced inflow and outflow are used to generate the flow field in a cuboid test section with different Reynolds number, the inflow and outflow are located at the central of left side and right side of the test section. In the second experiment, a main flow is introduced to the first experiment by adding another inflow and outflow which locate at a symmetric position on the bottom side of the test section. The flow field is generated by the two inflows and outflows with different Reynolds number. The results show that there is a linear relationship between PT asymmetry and Reynolds number when Reynolds number is less than 200 for a balanced inflow/outflow situation. They also show that there is a decreasing trend of PTasymmetry when Reynolds number increases for balanced inflow/outflow combined with main flow

Effects of shear-thinning viscosity and viscoelastic stresses on flagellated bacteria motility

The behavior of flagellated bacteria swimming in non-Newtonian media remains an area with contradictory and conflicting results. We report on the behavior of wild-type and smooth-swimming E. coli in Newtonian, shear-thinning, and viscoelastic media, measuring their trajectories and swimming speed using a three-dimensional real-time tracking microscope. We conclude that the speed enhancement in Methocel solution at higher concentrations is due to shear thinning and an analytical model is used to support our experimental result. We argue that shear-induced normal stresses reduce wobbling behavior during cell swimming but do not significantly affect swimming speed. However, the normal stresses play an important role in decreasing the flagellar bundling time, which changes the swimming-speed distribution. A dimensionless number, the “strangulation number” (Str) is proposed and used to characterize this effect

Changes in the flagellar bundling time account for variations in swimming behavior of flagellated bacteria in viscous media

Although the motility of the flagellated bacteria, Escherichia coli, has been widely studied, the effect of viscosity on swimming speed remains controversial. The swimming mode of wild-type E.coli is often idealized as a "run-and- tumble" sequence in which periods of swimming at a constant speed are randomly interrupted by a sudden change of direction at a very low speed. Using a tracking microscope, we follow cells for extended periods of time in Newtonian liquids of varying viscosity, and find that the swimming behavior of a single cell can exhibit a variety of behaviors including run-and-tumble and "slow-random-walk" in which the cells move at relatively low speed. Although the characteristic swimming speed varies between individuals and in different polymer solutions, we find that the skewness of the speed distribution is solely a function of viscosity and can be used, in concert with the measured average swimming speed, to determine the effective running speed of each cell. We hypothesize that differences in the swimming behavior observed in solutions of different viscosity are due to changes in the flagellar bundling time, which increases as the viscosity rises, due to the lower rotation rate of the flagellar motor. A numerical simulation and the use of Resistive Force theory provide support for this hypothesis

Controlling Organization and Forces in Active Matter Through Optically-Defined Boundaries

Living systems are capable of locomotion, reconfiguration, and replication. To perform these tasks, cells spatiotemporally coordinate the interactions of force-generating, "active" molecules that create and manipulate non-equilibrium structures and force fields that span up to millimeter length scales [1-3]. Experimental active matter systems of biological or synthetic molecules are capable of spontaneously organizing into structures [4,5] and generating global flows [6-9]. However, these experimental systems lack the spatiotemporal control found in cells, limiting their utility for studying non-equilibrium phenomena and bioinspired engineering. Here, we uncover non-equilibrium phenomena and principles by optically controlling structures and fluid flow in an engineered system of active biomolecules. Our engineered system consists of purified microtubules and light-activatable motor proteins that crosslink and organize microtubules into distinct structures upon illumination. We develop basic operations, defined as sets of light patterns, to create, move, and merge microtubule structures. By composing these basic operations, we are able to create microtubule networks that span several hundred microns in length and contract at speeds up to an order of magnitude faster than the speed of an individual motor. We manipulate these contractile networks to generate and sculpt persistent fluid flows. The principles of boundary-mediated control we uncover may be used to study emergent cellular structures and forces and to develop programmable active matter devices

Persistent fluid flows defined by active matter boundaries

Biological systems achieve precise control over ambient fluids through the self-organization of active protein structures including flagella, cilia, and cytoskeletal networks. In active structures individual proteins consume chemical energy to generate force and motion at molecular length scales. Self-organization of protein components enables the control and modulation of fluid flow fields on micron scales. The physical principles underlying the organization and control of active-matter driven fluid flows are poorly understood. Here, we apply an optically-controlled active-matter system composed of microtubule filaments and light-switchable kinesin motor proteins to analyze the emergence of persistent flow fields in a model active matter system. Using light, we form contractile microtubule networks of varying shape. We analyze the fluid flow fields generated by a wide range of microtubule network geometries and explain the resulting flow fields within a unified theoretical framework. We specifically demonstrate that the geometry of microtubule flux at the boundary of contracting microtubule networks predicts the steady-state fluid flow fields across polygonal network geometries through finite-element simulations. Our work provides a foundation for programming microscopic fluid-flows with controllable active matter and could enable the engineering of versatile and dynamic microfluidic devices

Controlling Organization and Forces in Active Matter Through Optically-Defined Boundaries

Living systems are capable of locomotion, reconfiguration and replication. To perform these tasks, cells spatiotemporally coordinate the interactions of force-generating, ‘active’ molecules that create and manipulate non-equilibrium structures and force fields of up to millimetre length scales. Experimental active-matter systems of biological or synthetic molecules are capable of spontaneously organizing into structures and generating global flows. However, these experimental systems lack the spatiotemporal control found in cells, limiting their utility for studying non-equilibrium phenomena and bioinspired engineering. Here we uncover non-equilibrium phenomena and principles of boundary-mediated control by optically modulating structures and fluid flow in an engineered system of active biomolecules. Our system consists of purified microtubules and light-activatable motor proteins that crosslink and organize the microtubules into distinct structures upon illumination. We develop basic operations—defined as sets of light patterns—to create, move and merge the microtubule structures. By combining these operations, we create microtubule networks that span several hundred micrometres in length and contract at speeds up to an order of magnitude higher than the speed of an individual motor protein. We manipulate these contractile networks to generate and sculpt persistent fluid flows. The principles of boundary-mediated control that we uncover may be used to study emergent cellular structures and forces and to develop programmable active-matter devices

Persistent fluid flows defined by active matter boundaries

Experimental data for active matter (microtubule and kinesin motor) contraction and fluid flow. Hollow square cases

Programming Boundary Deformation Patterns in Active Networks

This the dataset for the Programming Boundary Deformation Patterns in Active Networks