arXiv subjects

Babak Vajdi Hokmabad

Publications and source records attributed to Babak Vajdi Hokmabad.

7 recordsLinked to original sources

arXiv2026

Biogenic bubbles enable microbial escape from physical confinement

Immotile microbes inhabit nearly every environment on Earth, from soils and sediments to food matrices -- yet how they disperse through these physically confining environments is poorly understood. Here, we show that immotile microbial colonies confined in a model transparent yield-stress matrix can achieve long-range dispersal by harnessing their own metabolism. Using yeast as a model organism, we find that fermentation drives dissolved CO$_2$ to supersaturation, nucleating biogenic bubbles that grow, yield the matrix, and rise, hydrodynamically entraining cells vertically in their wake. Sequential bubble nucleation sculpts persistent columnar colonies extending far beyond what growth alone permits. Multiple colonies interact via their fermentation byproducts, merging and mixing genetically as they collectively sculpt self-sustaining conduit networks. Our findings reveal a third mode of microbial dispersal, distinct from the canonical mechanisms of motility and growth, with implications for ecology, environmental science, and biotechnology. More broadly, they exemplify a previously unrecognized class of active behavior -- Metabolically Driven Active Matter -- in which metabolic byproducts reshape the physical landscape of confinement to drive population-scale motion.

physics.bio-ph↗

arXiv2022

Interfacial activity dynamics of confined active droplets

Active emulsions can spontaneously form self-propelled droplets or phoretic micropumps. It has been predicted that the interaction with their self-generated chemical fields can lead to multistable higher-order flows and chemodynamic phenomena. However, it remains unclear how such reaction-advection-diffusion instabilities can emerge from the interplay between chemical reactions and interfacial hydrodynamics. Here, we simultaneously measure the flow fields and the chemical concentration fields using dual-channel microscopy for oil droplets that dynamically solubilize in a supramicellar aqueous surfactant solution. We developed an experimentally tractable setup with micropumps, droplets that are pinned between the top and bottom surfaces of a microfluidic reservoir, which we compare directly to predictions from a Brinkman squirmer model to account for the confinement. With increasing droplet radius, we observe (i) a migration of vortex flows from the posterior to the anterior of the droplet, analogous to a transition from pusher- to puller-type swimmers, (ii) a bistability between dipolar and quadrupolar flow modes, and, eventually, (iii) a transition to multipolar modes. We also investigate how the dynamics evolve over long time periods. Together, our observations suggest that a local build-up of chemical products leads to a saturation of the surface, which controls the propulsion mechanism. These multistable dynamics can be explained by the competing time scales of slow micellar diffusion governing the chemical buildup and faster molecular diffusion powering the underlying transport mechanism. Our results are directly relevant to phoretic micropumps, but also shed light on the interfacial activity dynamics of self-propelled droplets and other active emulsion systems

cond-mat.soft↗

arXiv2022

Chemotactic self-caging in active emulsions

A common feature of biological self-organization is how active agents communicate with each other or their environment via chemical signaling. Such communications, mediated by self-generated chemical gradients, have consequences for both individual motility strategies and collective migration patterns. Here, in a purely physicochemical system, we use self-propelling droplets as a model for chemically active particles that modify their environment by leaving chemical footprints, which act as chemorepulsive signals to other droplets. We analyze this communication mechanism quantitatively both on the scale of individual agent-trail collisions as well as on the collective scale where droplets actively remodel their environment while adapting their dynamics to that evolving chemical landscape. We show in experiment and simulation how these interactions cause a transient dynamical arrest in active emulsions where swimmers are caged between each other's trails of secreted chemicals. Our findings provide new insight into the collective dynamics of chemically active particles and yield principles for predicting how negative autochemotaxis shapes their navigation strategy.

cond-mat.soft↗

arXiv2021

Spontaneously rotating clusters of active droplets

We report on the emergence of spontaneously rotating clusters in active emulsions. Ensembles of self-propelling droplets sediment and then self-organise into planar, hexagonally ordered clusters which hover over the container bottom while spinning around the plane normal. This effect exists for symmetric and asymmetric arrangements of isotropic droplets and is therefore not caused by torques due to geometric asymmetries. We found, however, that individual droplets exhibit a helical swimming mode in a small window of intermediate activity in a force-free bulk medium. We show that by forming an ordered cluster, the droplets cooperatively suppress their chaotic dynamics and turn the transient instability into a steady rotational state. We analyse the collective rotational dynamics as a function of droplet activity and cluster size and further propose that the stable collective rotation in the cluster is caused by a cooperative coupling between the rotational modes of individual droplets in the cluster.

cond-mat.soft↗

arXiv2021

Oscillatory rheotaxis of active droplets in microchannels

Biological microswimmers are known to navigate upstream of an external flow (positive rheotaxis) in trajectories ranging from linear, spiral to oscillatory. Such rheotaxis stems from the interplay between the motion and complex shapes of the microswimmers, e.g. the chirality of the rotating flagella, the shear flow characteristics, and the hydrodynamic interaction with a confining surface. Here, we show that an isotropic, active droplet microswimmer exhibits a unique oscillatory rheotaxis in a microchannel despite its simple spherical geometry. The swimming velocity, orientation, and the chemical wake of the active droplet undergo periodic variations between the confining walls during the oscillatory navigation. Using a hydrodynamic model and concepts of dynamical systems, we demonstrate that the oscillatory rheotaxis of the active droplet emerges primarily from the interplay between the hydrodynamic interaction of the finite-sized microswimmer with all the microchannel walls, and the shear flow characteristics. Such oscillatory rheotactic behavior is different from the directed motion near a planar wall observed previously for artificial microswimmers in shear flows. Our results provide a realistic understanding of the behaviour of active particles in confined microflows, as will be encountered in majority of the applications like targeted drug delivery.

cond-mat.soft↗

arXiv2021

Emergence of bimodal motility in active droplets

To explore and react to their environment, living micro-swimmers have developed sophisticated strategies for locomotion - in particular, motility with multiple gaits. To understand the physical principles associated with such a behavioural variability,synthetic model systems capable of mimicking it are needed. Here, we demonstrate bimodal gait switching in autophoretic droplet swimmers. This minimal experimental system is isotropic at rest, a symmetry that can be spontaneously broken due to the nonlinear coupling between hydrodynamic and chemical fields, inducing a variety of flow patterns that lead to different propulsive modes. We report a dynamical transition from quasi-ballistic to bimodal chaotic motion, controlled by the viscosity of the swimming medium. By simultaneous visualisation of the chemical and hydrodynamic fields, supported quantitatively by an advection-diffusion model, we show that higher hydrodynamic modes become excitable with increasing viscosity, while the recurrent mode-switching is driven by the droplet's interaction with self-generated chemical gradients. We further demonstrate that this gradient interaction results in anomalous diffusive swimming akin to self-avoiding spatial exploration strategies observed in nature.

cond-mat.soft↗

arXiv2019

Topological Stabilization and Dynamics of Self-propelling Nematic Shells

Liquid shells (e.g. double emulsions, vesicles etc.) are susceptible to interfacial instability and rupturing when driven out of mechanical equilibrium. This poses a significant challenge for the design of liquid shell based micro-machines, where the goal is to maintain stability and dynamical control in combination with motility. Here we present our solution to this problem with controllable self-propelling liquid shells, which we have stabilized using the soft topological constraints imposed by a nematogen oil. We demonstrate, through experiments and simulations, that anisotropic elasticity can counterbalance the destabilizing effect of viscous drag induced by shell motility, and inhibit rupturing. We analyze their propulsion dynamics, and identify a peculiar meandering behavior driven by a combination of topological and chemical spontaneously broken symmetries. Based on our understanding of these symmetry breaking mechanisms, we provide routes to control shell motion via topology, chemical signaling and hydrodynamic interactions.

cond-mat.soft↗