Active particle is a general term used to label a large set of different systems, spanning from a flock of birds flying in a coordinated pattern to a school of fish abruptly changing its direction or to a bacterium self-propelling itself while foraging nourishment. The common property shared by these systems is that their constituent agents, e.g. birds, fishes, or bacteria, are capable of harvesting energy from the surrounding environment and converting it into self-propulsion and directed motion. This peculiar feature characterizes them as out-of-equilibrium systems, in fact, the process of energy consumption and dissipation generates microscopically irreversible dynamics and drives them far from thermal equilibrium. Thanks to their intrinsic out-of-equilibrium nature, active particle systems often display characteristic patterns and behaviors that are not observed in equilibrium physics systems, such as collective motion or motility-induced phase separation. These features prompted the development of theories and algorithms to simulate and study active particles, giving rise to paradigmatic models capable of describing these phenomena, such as the Vicsek model for collective motion, the run-and-tumble model, or the active Brownian particle model. At the same time, synthetic agents have been designed to reproduce the behaviors of these natural active particle systems, and their evolution could play a fundamental role in the nanotechnology of the 21st century and the development of novel medical treatments, in particular controlled drug delivery. A specific type of active particle that uses its directed motion to move at the microscale is called a microswimmer. Examples of these agents are bacteria exploring their surroundings while searching for food or escaping external threats, spermatozoa looking for the egg, or artificial Janus particles designed for specific tasks. Active agents at these scales use different swimming mechanisms, such as rotating flagella or phoretic motion along chemical gradients that they can create. The outcome of their efforts is determined by the interplay of the translational diffusion intrinsic to the dynamics at these scales and the persistent motion that characterizes their self-propulsion. The problem of finding a specific target in a complex environment is essential for microswimmers and active agents in general. Target search is employed by animals and microorganisms for a variety of purposes, from foraging nourishment to escaping potential threats, such as in the case of bacterial chemotaxis. The study of this process is therefore fundamental to characterize the behavior of these systems in nature. Its complete description could then be employed in designing synthetic microswimmers for addressing specific problems, such as the aforementioned targeted drug delivery and the environmental cleansing of soil and polluted water. Here, we provide a detailed study of the target search process for microswimmers exploring complex environments. To this end, we generalize Transition Path Theory, the rigorous statistical mechanics description of transition processes, to the target-search problem. The most general way of modeling a complex environment that the microswimmer has to navigate is through an external potential. This potential can be characterized by high barriers separating metastable states in the system or by the presence of confining boundaries. If a high energy barrier is located between the initial position of the microswimmer and its target, the target search becomes a rare event. Rare events have been thoroughly investigated in equilibrium physics, and several algorithms have been designed to cope with the separation of timescales intrinsic to these problems and enable their investigation via efficient computer simulations. Despite the large set of tools developed for studying passive particles performing rare transitions, the characterization of this process for non-equilibrium systems, such as active particles, is still lacking. One of the main results of this thesis is the generalization to non-equilibrium systems of the Transition Path Sampling (TPS) algorithm, which was originally designed to simulate rare transitions in passive systems. This algorithm relies on the generation of productive trajectories, i.e. trajectories linking the initial state of the particle to the target state, via a Monte Carlo procedure, without the need of simulating long thermal oscillations in metastable states. These trajectories are then accepted according to a Metropolis criterion and are subsequently used to obtain the transition path ensemble, i.e. the ensemble of all reactive paths that completely characterizes the process. The TPS algorithm relies on microscopic reversibility to generate the productive trajectories, therefore its generalization to out-of-equilibrium systems lacking detailed balance and microscopic reversibility has remained a major challenge. Within this work, after deriving a path integral representation for active Brownian particles, we provide a new rule for the generation and acceptance of productive non-equilibrium trajectories, which reduces to the usual expression for passive particles when the activity of the microswimmer is set to zero. This new rule allows us to generalize the TPS algorithm to the case of active Brownian particles and to obtain a first insight into the counterintuitive target-search pathways explored by these particles. In fact, while passive particles perform barrier crossing following the minimum energy path linking the initial state to the target state, we found that active particles, thanks to their activity and persistence of motion, can reach the target more often by surfing higher energy regions of the landscape that lie far from the minimum energy path. The second result of this thesis is a systematic characterization of the target-search path ensemble for an active particle exploring an energy landscape. We do so by analyzing the system’s response to changes in the two adimensional parameters that define the parameter space of the model: the Péclet number and the persistence of the active particle. Our findings show that active Brownian particles can increase their target-finding rates by tuning their Péclet number and their persistence according to the shape and characteristics of the external landscape. We perform this analysis in two different landscapes, namely a double-well potential and the Brown-Müller potential, finding robust features in the target-search patterns. In contrast, other observables of the system, e.g. the target-finding rates, are more responsive to the features of the external environment. Interestingly, our results suggest that, differently from what happens for passive particles, the presence of additional metastable states in the system does not hinder the target-search dynamics of active particles. The third original contribution of this Ph.D. thesis is the generalization of the concept of the committor function to target-search problems. The committor function was first introduced in the framework of Transition Path Theory to study reaction processes. If a definition for a reactant and a product state embedded in the configuration space of the system is provided, the committor function quantifies the probability that a trajectory starting in a given configuration reaches the product state before it can enter the reactant. For this reason, it has been proven to be pivotal for a complete characterization of these events and it is often regarded as the optimal reaction coordinate for thermally activated transitions. The target search problem shares many similarities with transition processes since it is characterized by an initial state from which the agent begins its journey and a target state that the particle is aiming to reach, and often some barriers or obstacles separate the two. Exploiting these similarities, we take advantage of the concept of the committor function to fully characterize a target-search process performed by an active agent. First, we derive the Fokker-Planck equation for an active Brownian particle subject to an external potential, and we use its associated probability current to define the committor function for an active agent. Then, we prove that the active committor satisfies the Backward-Kolmogorov equation analogously to the committor for passive particles. We take advantage of this property to efficiently compute the committor function using a finite-difference algorithm, validating it with brute-force simulations. Finally, we further validate our theory with experiments of a camphor self-propelled disk. This self-propelled disk is capable of moving on a water surface and is studied during its exploration of a circular confining environment. We start by analyzing long recorded trajectories of such a disk moving in a Petri dish, and, after defining a reactant and a product region in the system, we proceed to compute the committor function in three different regions contained in the dish. We analyze all the trajectory slices passing through those regions and we measure how many of them hit the product region and how many hit instead the reactant first, and we obtain the committor in the three regions as a function of the angle. Finally, we simulate a long trajectory of an active Brownian particle exploring a circular confining environment, and we compare the committor as an angular function obtained from brute-force simulations with the committor estimated from experimental data.
| Identifer | oai:union.ndltd.org:unitn.it/oai:iris.unitn.it:11572/339912 |
| Date | 02 May 2022 |
| Creators | Zanovello, Luigi |
| Contributors | Franosch, Thomas, Zanovello, Luigi, Faccioli, Pietro |
| Publisher | Università degli studi di Trento, place:TRENTO |
| Source Sets | Università di Trento |
| Language | English |
| Detected Language | English |
| Type | info:eu-repo/semantics/doctoralThesis |
| Rights | info:eu-repo/semantics/openAccess |
| Relation | firstpage:1, lastpage:149, numberofpages:149, alleditors:Franosch, Thomas |
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