arXiv subjects

Juan Pablo Carrillo-Mora

Publications and source records attributed to Juan Pablo Carrillo-Mora.

4 recordsLinked to original sources

arXiv2025

Depinning and activated motion of chiral self-propelled robots

We study experimentally, numerically and analytically, the dynamics of a chiral active particle (cm-sized robots), pulled at a constant translational velocity. We show that the system can be mapped to a Brownian particle driven across a periodic potential landscape, and thus exhibits a rotational depinning transition in the noiseless limit, giving rise to a creep regime in the presence of rotational diffusion. We show that a simple model of chiral, self-aligning, active particles accurately describes such dynamics. The steady-state distribution and escape times from local potential barriers, corresponding to long-lived orientations of the particles, can be computed exactly within the model and is in excellent agreement with both experiments and particle-based simulations, with no fitting parameters. Our work thus consolidates such self-propelled robots as a model system for the study of chiral active matter, and highlights the interesting dynamics arising from the interplay between external and internal driving forces in the presence of a self-aligning torque.

cond-mat.stat-mech↗

arXiv2025

Preventing clustering of active particles in microchannels

The trajectories of microswimmers moving in narrow channels of widths comparable to their sizes are significantly altered when they encounter another microswimmer moving in the opposite direction. The consequence of these encounters is a delay in the progress of both swimmers, which can be conceptualized as an instantaneous effective backward displacement. Similarly, the modeling of tumble events in bacteria, which occur over a finite time, can be represented as an instantaneous effective displacement in addition to a change in direction. Such effective displacements can be incorporated directly into a kinetic theory for the partial densities of swimmers moving in the channel. The linear analysis of the resulting equation yields the critical density at which clusters emerge. The methodology is then applied to the case of soil bacteria moving in long channels of cross-section 1.8~$μ$m $\times$ 1.8~$μ$m. The tracking of the swimmers permits the straightforward acquisition of the effective displacements, which in turn allows the critical density ($ρ_{\text{crit}}\simeq$ 0.10 bact/$μ$m) to be predicted prior to cluster formation. The advantage of this proposed approach is that it does not necessitate the determination of an effective density-dependent speed, which is a requisite of the standard motility-induced phase separation theory.

cond-mat.soft↗

arXiv2025

Soil-mimicking microfluidic devices reveal restricted flagellar motility of Bradyrhizobium diazoefficiens under microconfinement

Bradyrhizobium diazoefficiens is a nitrogen-fixing symbiont of soybean, worldwide used as biofertilizer. This soil bacterium possesses two flagellar systems enabling it to swim in water-saturated soils. However, the motility in soil pores, which may be crucial for competitiveness for root nodulation, is difficult to predict. To address this gap, we fabricated microfluidic devices with networks of connected microchannels surrounding grains. In them, we directly visualise bacterial behaviour in transparent geometries mimicking minimalist soils-on-a-chip (SOCs). We measured the population velocities and changes of direction for two strains: the wild-type and a mutant with only a subpolar flagellum. A detailed statistical analysis revealed that both strains exhibited reduced speeds and increased changes of direction of 180$^\circ$, in channels of decreasing cross sectional area, down to a few microns in width. Interestingly, while the wild-type strain displayed faster swimming in unconfined spaces, this advantage was negated in the SOCs with the narrowest microchannels. We employed the measured motility parameters to propose a realistic model and simulate B. diazoefficiens confined dynamics being able to reproduce their behaviour, which additionally can be extended enabling further predictions for long time and macro scales. This multidisciplinary work, combining design, microfabrication, microbiology and modelling, offers useful methods to study soil bacteria and may be readily extended to other beneficial/harmful soil species.

physics.bio-ph↗

arXiv2025

Damage and recovery of flagella in soil bacteria exposed to shear within long microchannels

The swimming motility of bacteria is driven by the action of bacterial flagellar motors, whose outermost structure is a long and thin helicoidal filament. When rotated, the fluid medium exerts an anisotropic viscous drag on the flagellar filaments, ultimately leading to bacterial propulsion. The flagellar filaments are protein-based flexible structures that can break due to interactions with fluid flows. Here, we study the evolution of flagellar filaments in the soil bacterium $\textit{Bradyrhizobium diazoefficiens}$ after being exposed to shear flows created in long microchannels, for shear rates between $1$ s$^{-1}$ and $10^5$ s$^{-1}$, and for durations between tens of milliseconds and minutes. We demonstrate that the average swimming speed and fraction of swimming cells decrease after exposition to shear, but both parameters can recover, at least partially, with time. These observations support the hypothesis that shear flows cut flagellar filaments but that reversibly damaged bacterial flagellar motors can be restored thanks to filament regeneration. By fitting our observations with phenomenological expressions, we obtain the individual growth rates of the two different flagellar filaments that $\textit{B. diazoefficiens}$ possesses, showing that the lateral filaments have a recovery time of about 40 min while the subpolar one requires more than 4.5 h to regrow. Our work demonstrates that simple monitoring of bacterial motility after exposition to shear can be used to characterize the process of flagellar filament breakup and growth, a phenomenon widely present in bacteria swimming in porous soil and exposed to shear flows due to rainfall and watering systems.

physics.bio-ph↗