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R. Di Leonardo

Publications and source records attributed to R. Di Leonardo.

At least 19 recordsLinked to original sources
arXiv2023

Thermal Fluctuations For a Three-Beads Swimmer

We discuss a micro-swimmer model made of three spheres actuated by an internal active time-periodic force, tied by an elastic potential and submitted to hydrodynamic interactions with thermal noise. The dynamical approach we use, replacing the more common kinetic one, unveils the instability of the original model and the need of a confining potential to prevent the evaporation of the swimmer. We investigate the effect of the main parameters of the model, such as the frequency and phase difference of the periodic active force, the stiffness of the confining potential, the length of the swimmer and the temperature and viscosity of the fluid. Our observables of interest are the averages of the swim velocity, of the energy consumption rate, the diffusion coefficient and the swimming precision, which is limited by the energy consumption through the celebrated Thermodynamic Uncertainty Relations. An optimum for velocity and precision is found for an intermediate frequency. Reducing the potential stiffness, the viscosity or the length, is also beneficial for the swimming performance, but these parameters are limited by the consistency of the model. Analytical approximation for many of the interesting observables is obtained for small deformations of the swimmer. We also discuss the efficiency of the swimmer in terms of its maximum precision and of the hydrodynamic, or Lighthill, criterion, and how they are connected.

cond-mat.soft↗
arXiv2023

Thermodynamic limits of sperm swimming precision

Sperm swimming is crucial to fertilise the egg, in nature and in assisted reproductive technologies. Modelling the sperm dynamics involves elasticity, hydrodynamics, internal active forces, and out-of-equilibrium noise. Here we demonstrate experimentally the relevance of energy dissipation for sperm beating fluctuations. For each motile cell, we reconstruct the time-evolution of the two main tail's spatial modes, which together trace a noisy limit cycle characterised by a maximum level of precision $p_{max}$. Our results indicate $p_{max} \sim 10^2 s^{-1}$, remarkably close to the estimated precision of a dynein molecular motor actuating the flagellum, which is bounded by its energy dissipation rate according to the Thermodynamic Uncertainty Relation. Further experiments under oxygen deprivation show that $p_{max}$ decays with energy consumption, as it occurs for a single molecular motor. Both observations can be explained by conjecturing a high level of coordination among the conformational changes of dynein motors. This conjecture is supported by a theoretical model for the beating of an ideal flagellum actuated by a collection of motors, including a motor-motor nearest neighbour coupling of strength $K$: when $K$ is small the precision of a large flagellum is much higher than the single motor one. On the contrary, when $K$ is large the two become comparable.

cond-mat.soft↗
arXiv2017

Self-assembly of micro-machining systems powered by Janus micro-motors

Integration of active matter in larger micro-devices can provide an embedded source of propulsion and lead to self-actuated micromachining systems that do not rely on any external power or control apparatus. Here we demonstrate that Janus colloids can self-assemble around micro-fabricated rotors in reproducible configurations with a high degree of spatial and orientational order. The final configuration maximizes the torque applied on the rotor leading to a unidirectional and steady rotating motion. We discuss how the interplay between geometry and dynamical behavior consistently leads to the self-assembly of autonomous micromotors starting from randomly distributed building blocks.

cond-mat.soft↗
arXiv2015

Self-Sustained Density Oscillations of Swimming Bacteria Confined in Microchambers

We numerically study the dynamics of run-and-tumble particles confined in two chambers connected by thin channels. Two dominant dynamical behaviors emerge: (i) an oscillatory pumping state, in which particles periodically fill the two vessels and (ii) a circulating flow state, dynamically maintaining a near constant population level in the containers when connected by two channels. We demonstrate that the oscillatory behaviour arises from the combination of a narrow channel, preventing bacteria reorientation, and a density dependent motility inside the chambers.

cond-mat.soft↗
arXiv2015

Polar features in the flagellar propulsion of E. coli bacteria

E. coli bacteria swim following a run and tumble pattern. In the run state all flagella join in a single helical bundle that propels the cell body along approximately straight paths. When one or more flagellar motors reverse direction the bundle unwinds and the cell randomizes its orientation. This basic picture represents an idealization of a much more complex dynamical problem. Although it has been shown that bundle formation can occur at either pole of the cell, it is still unclear whether this two run states correspond to asymmetric propulsion features. Using holographic microscopy we record the 3D motions of individual bacteria swimming in optical traps. We find that most cells possess two run states characterised by different propulsion forces, total torque and bundle conformations. We analyse the statistical properties of bundle reversal and compare the hydrodynamic features of forward and backward running states. Our method is naturally multi-particle and opens up the way towards controlled hydrodynamic studies of interacting swimming cells.

cond-mat.soft↗
arXiv2015

Directed transport of active particles over asymmetric energy barriers

We theoretically and numerically investigate the transport of active colloids to target regions, delimited by asymmetric energy barriers. We show that it is possible to introduce a generalized effective temperature that is related to the local variance of particle velocities. The stationary probability distributions can be derived from a simple diffusion equation in the presence of an inhomogeneous effective temperature resulting from the action of external force fields. In particular, transitions rates over asymmetric energy barriers can be unbalanced by having different effective temperatures over the two slopes of the barrier. By varying the type of active noise, we find that equal values of diffusivity and persistence time may produce strongly varied effective temperatures and thus stationary distributions.

cond-mat.soft↗
arXiv2015

First-passage time of run-and-tumble particles

We solve the problem of first-passage time for run-and-tumble particles in one dimension. Exact expression is derived for the mean first-passage time in the general case, considering external force-fields and chemotactic-fields, giving rise to space dependent swim-speed and tumble rate. Agreement between theoretical formulae and numerical simulations is obtained in the analyzed case studies -- constant and sinusoidal force fields, constant gradient chemotactic field. Reported findings can be useful to get insights into very different phenomena involving active particles, such as bacterial motion in external fields, intracellular transport, cell migration, animal foraging.

cond-mat.stat-mech↗
arXiv2014

Run-and-tumble particles in speckle fields

The random energy landscapes developed by speckle fields can be used to confine and manipulate a large number of micro-particles with a single laser beam. By means of molecular dynamics simulations, we investigate the static and dynamic properties of an active suspension of swimming bacteria embedded into speckle patterns. Looking at the correlation of the density fluctuations and the equilibrium density profiles, we observe a crossover phenomenon when the forces exerted by the speckles are equal to the bacteria's propulsion.

cond-mat.stat-mech↗
arXiv2014

Focusing and imaging with increased numerical apertures through multimode fibers with micro-fabricated optics

The use of individual multimode optical fibers in endoscopy applications has the potential to provide highly miniaturized and noninvasive probes for microscopy and optical micromanipulation. A few different strategies have been proposed recently, but they all suffer from intrinsically low resolution related to the low numerical aperture of multimode fibers. Here, we show that two-photon polymerization allows for direct fabrication of micro-optics components on the fiber end, resulting in an increase of the numerical aperture to a value that is close to 1. Coupling light into the fiber through a spatial light modulator, we were able to optically scan a submicrometer spot (300 nm FWHM) over an extended region, facing the opposite fiber end. Fluorescence imaging with improved resolution is also demonstrated.

physics.optics↗
arXiv2013

Effective run-and-tumble dynamics of bacteria baths

{\it E. coli} bacteria swim in straight runs interrupted by sudden reorientation events called tumbles. The resulting random walks give rise to density fluctuations that can be derived analytically in the limit of non interacting particles or equivalently of very low concentrations. However, in situations of practical interest, the concentration of bacteria is always large enough to make interactions an important factor. Using molecular dynamics simulations, we study the dynamic structure factor of a model bacterial bath for increasing values of densities. We show that it is possible to reproduce the dynamics of density fluctuations in the system using a free run-and-tumble model with effective fitting parameters. We discuss the dependence of these parameters, e.g., the tumbling rate, tumbling time and self-propulsion velocity, on the density of the bath.

cond-mat.stat-mech↗
arXiv2011

From 3D to 2D Hydrodynamics in Interacting Micro-rods

Moving micron scale objects are strongly coupled to each other by hydrodynamic interactions. The strength of this coupling decays as the inverse particle separation when the two objects are sufficiently far apart. It has been recently demonstrated that the reduced dimensionality of thin fluid layer gives rise to longer ranged, logarithmic coupling. Using holographic tweezers we show that microrods display both behaviors interacting like point particle in 3D at large distance and like point particles in 2D for distances shorter then their length. We derive a simple analytical expression that fits remarkably well our data and further validate it with finite element analysis.

cond-mat.soft↗
arXiv2009

A bacterial ratchet motor

Self-propelling bacteria are a dream of nano-technology. These unicellular organisms are not just capable of living and reproducing, but they can swim very efficiently, sense the environment and look for food, all packaged in a body measuring a few microns. Before such perfect machines could be artificially assembled, researchers are beginning to explore new ways to harness bacteria as propelling units for micro-devices. Proposed strategies require the careful task of aligning and binding bacterial cells on synthetic surfaces in order to have them work cooperatively. Here we show that asymmetric micro-gears can spontaneously rotate when immersed in an active bacterial bath. The propulsion mechanism is provided by the self assembly of motile Escherichia coli cells along the saw-toothed boundaries of a nano-fabricated rotor. Our results highlight the technological implications of active matter's ability to overcome the restrictions imposed by the second law of thermodynamics on equilibrium passive fluids.

cond-mat.stat-mech↗
arXiv2008

Colloidal attraction induced by a temperature gradient

Colloidal crystals are of extreme importance for applied research, such as photonic crystals technology, and for fundamental studies in statistical mechanics. Long range attractive interactions, such as capillary forces, can drive the spontaneous assembly of such mesoscopic ordered structures. However long range attractive forces are very rare in the colloidal realm. Here we report a novel strong and long ranged attraction induced by a thermal gradient in the presence of a wall. Switching on and off the thermal gradient we can rapidly and reversibly form stable hexagonal 2D crystals. We show that the observed attraction is hydrodynamic in nature and arises from thermal induced slip flow on particle surfaces. We used optical tweezers to directly measure the force law and compare it to an analytic prediction based on Stokes flow driven by Marangoni forces.

cond-mat.soft↗
arXiv2008

Hydrodynamic Interactions in Two Dimensions

We measure hydrodynamic interactions between colloidal particles confined in a thin sheet of fluid. The reduced dimensionality, compared to a bulk fluid, increases dramatically the range of couplings. Using optical tweezers we force a two body system along the eigenmodes of the mobility tensor and find that eigen-mobilities change logarithmically with particle separation. At a hundred radii distance, the mobilities for correlated and anti-correlated motions differ by a factor of two, whereas in bulk fluids, they would be practically indistinguishable. We derive the two dimensional counterpart of the Oseen hydrodynamic tensor which quantitatively reproduces the observed behavior. These results highlight the importance of dimensionality for transport and interactions in colloidal systems and proteins in biological membranes.

cond-mat.soft↗
arXiv2007

The very long range nature of capillary interactions in liquid films

Micron-sized objects confined in thin liquid films interact through forces mediated by the deformed liquid-air interface. This capillary interactions provide a powerful driving mechanism for the self-assembly of ordered structures such as photonic materials or protein crystals. Direct probing of capillary interactions requires a controlled force field to independently manipulate small objects while avoiding any physical contact with the interface. We demonstrate how optical micro-manipulation allows the direct measurement of capillary interactions between two micron sized spheres in a free standing liquid film. The force falls off as an inverse power law in particles separation. We derive and validate an explicit expression for this exponent whose magnitude is mainly governed by particles size. For micron-sized objects we found an exponent close to, but smaller than one, making capillary interactions a unique example of strong and very long ranged forces in the mesoscopic world.

cond-mat.soft↗
arXiv2007

Shear banding phenomena in a Laponite suspension

Shear localization in an aqueous clay suspension of Laponite is investigated through dynamic light scattering, which provides access both to the dynamics of the system (homodyne mode) and to the local velocity profile (heterodyne mode). When the shear bands form, a relaxation of the dynamics typical of a gel phase is observed in the unsheared band soon after flow stop, suggesting that an arrested dynamics is present during the shear localization regime. Periodic oscillations of the flow behavior, typical of a stick-slip phenomenon, are also observed when shear localization occurs. Both results are discussed in the light of various theoretical models for soft glassy materials.

physics.flu-dyn↗
arXiv2007

Parametric Resonance of Optically Trapped Aerosols

The Brownian dynamics of an optically trapped water droplet are investigated across the transition from over to under-damped oscillations. The spectrum of position fluctuations evolves from a Lorentzian shape typical of over-damped systems (beads in liquid solvents), to a damped harmonic oscillator spectrum showing a resonance peak. In this later under-damped regime, we excite parametric resonance by periodically modulating the trapping power at twice the resonant frequency. The power spectra of position fluctuations are in excellent agreement with the obtained analytical solutions of a parametrically modulated Langevin equation.

cond-mat.stat-mech↗