Abstract
One of the most notable features in repulsive particle based active matter systems is motility-induced-phase separation (MIPS) where a dense, often crystalline phase and low density fluid coexist. Most active matter studies involve time-dependent activity; however, there are many active systems where individual particles transition from living or moving to dead or nonmotile due to lack of fuel, infection, or poisoning. Here we consider an active matter particle system at densities where MIPS does not occur. When we add a small number of infected particles that can poison other particles, rendering them nonmotile, we find a rich variety of time dependent pattern formation, including MIPS, a wetting phase, and a fragmented state formed when mobile particles plow through a nonmotile packing. We map the patterns as a function of time scaled by epidemic duration, and show that the pattern formation is robust for a wide range of poisoning rates and activity levels. We also show that pattern formation does not occur in a random death model, but requires the promotion of nucleation by contact poisoning. Our results should be relevant to biological and active matter systems where there is some form of poisoning, death, or transition to nonmotility.
Similar content being viewed by others
Introduction
Active matter denotes systems of interacting particles that benefit from some form of self motility. It has been used to model biological systems, active colloids, artificial swimmers, social systems, and robotics1,2,3,4,5,6. Due to their nonequilibrium nature, active systems exhibit a variety of irreversible behavior7,8,9,10, boundary interactions11,12,13,14,15, and novel transport effects16. One of the most striking phenomena in particle based active matter systems is motility induced phase separation (MIPS)17,18,19,20,21,22, where even for purely steric repulsive interactions that produce a uniform fluid in the Brownian limit, phase separation occurs at large activity into a high density solid surrounded by a lower density fluid or gas. The transition to the MIPS phase occurs as a function of increasing activity and/or particle density.
The propulsion in active systems can arise from chemical reactions on the surfaces of colloidal particles, from biological motors, or from mechanical motors in robots. It is generally possible for individual active particles to transition into a non-active or nonmotile state for several reasons, such as exhaustion of available fuel, finite motor lifetime, or death of a biological agent due to poisoning or excessive age. Depending on the scenario, the non-active state may be permanent or temporary. Despite the wide variety of scenarios in which the lifetime of the activity is finite, relatively little is known about how this could impact pattern formation. For example, if the active system is in a regime where MIPS is absent, reducing the mobility should push the system further away from the MIPS regime. If the system is already in a MIPS phase, the addition of dead or nonmotile particles may be expected simply to break up the clustering.
Some works have addressed mixtures of active and passive (nonmotile) particles in different limits. For example, a small number of active dopants added to a passive system can lead to the annealing of topological defects or can cause the passive particles to segregate into a crystalline-like arrangement23,24,25,26,27. Other studies of active and passive binary mixtures have focused on how the active particles can cause the passive particles to form a dense cluster28,29. Up until now, in studies of this type the ratio of active to passive particles has been held fixed, and it is not clear what would happen if there were some form of poisoning present in the system that could cause the number of passive particles to increase over time. Poisoning can be modeled by introducing nonmotile particles that can spread their nonmotile state to mobile particles through direct contact to create an epidemic-like transmission. A variant of this is to introduce a random death process where individual particles transition suddenly from mobile to nonmotile irrespective of any interactions with other particles. In both of these cases, mobile particles are only transiently present, and in the final state all of the particles are nonmotile. An open question is whether any kind of pattern formation occurs in such systems and whether it makes a difference if nonmotility is introduced through contact poisoning or through random death.
Motivated by recent models of epidemic behavior in active matter systems for susceptible-infected-recovered (SIR) dynamics30,31,32,33,34,35,36, in this work we study active run-and-tumble disks under non-MIPS conditions where we add a small number of nonmotile or dead particles that act as poisoning agents. With some finite probability, a mobile particle that is in contact with a nonmotile particle becomes nonmotile. We find that despite the apparent simplicity of this model, it exhibits a wide variety of transient pattern formation. At early times, the dead particles create small local clusters that act as nucleation sites for the growth of a large dense triangular cluster consisting of a dead central region surrounded by an accumulation of motile active particles. The accumulation process can be viewed as an example of active wetting or aggregation along walls, as observed in previous studies of active matter systems with barriers37,38,39,40. The active particles in the accumulation region are progressively converted to nonmotile particles, driving the growth of the dense crystalline cluster. Once the nonmotile dense cluster has consumed a sufficiently large fraction of particles, the remaining active particles begin to create a fragmented zone along the edges of the cluster. The fragments consist of an intermediate density amorphous packing of passive particles crisscrossed by plow tracks from the active particles. The fragmented state penetrates the dense phase as a well defined front until the dense phase has become entirely fragmented.
Signatures of the pattern formation appear as a nonmonotonic time dependent behavior of the cluster size and the average number of contacts. We map out the transient cluster formation as a function of the activity level or run length and the poisoning probability β, and show that the pattern formation we observe is robust for a wide range of parameters. For low activity or low infectivity, pattern formation is absent. In a higher density system that can form MIPS states, the poisoning breaks up the MIPS. We show that the pattern formation we observe is due to the particle-particle information exchange, where the initial clustering of dead particles produces nucleation sites that cause active particles to become nonmotile or effectively stick to the cluster. In systems with random death, the pattern formation is lost.
Results
In previous work, we studied epidemic spreading in active matter systems with SIR models41,42 or variations thereon34,36. We considered a case where a susceptible (S) active particle comes into contact with an infected (I) particle, and during each simulation time step of contact, there is a probability β that the S particle will convert to I. If the only available states are susceptible and infected, the model is known as the susceptible-infected (SI) model, and, provided that every particle can come in contact with other particles, all particles will eventually transform to I. In the SIR model, I particles spontaneously transition to the recovered (R) state with a rate μ, opening the possibility that all the infected particle recover before the pool of susceptible particles is exhausted. As a result, over a range of β and μ values, a portion of the initial S particles never become infected. The epidemic size, defined as the fraction of recovered particles at the end of the epidemic, depends on the ratio of the transmission and recovery rates. In previous studies of SI and SIR epidemic dynamics on active matter, the infected particles remained mobile; however, in many physically relevant cases, infected particles would likely become nonmotile. In biological systems, a more realistic situation could be that the infected particles die, but remain capable of transmitting the infection or acting as a poison to other particles.
Here we consider a variation of the active matter SI model that we term the contact poisoning model. In this model, S particles are capable of becoming infected (poisoned), I denotes a nonmotile infectious or poisoning particle, and there is no spontaneous recovery. As a result, all the particles are eventually infected. For simulation details, see: Methods. Using the results from our previous work, we select a run length and motor force for which the system is in a uniform density phase rather than in the MIPS regime.
We summarize the dynamics of the epidemic using the temporal evolution of the fraction of infected individuals i(t). We want to relate this to the time evolution of the largest cluster size C and the average contact number Z per particle, both of which are determined by examining all particles in direct contact with each other. In Fig. 1(a,b), we show an example of how C and Z evolve for a system with Ïâ=â0.314, Ïâ=â15000, FMâ=â1.5, and βâ=â8âÃâ10â6. The time t is normalized by the duration of the epidemic, defined as the time required for the last S particle to reach state I. Figure 1(c) shows the corresponding fraction s of susceptible particles and infected nonmotile particles i. The data is obtained by averaging together ten different realizations in which time has been normalized by the duration of the epidemic, defined as the time required for the last S particle to reach state I so that all particles are nonmotile. Here, C and Z are nonmonotonic and reach a peak value near tâ=â0.45, indicative of transient cluster formation.
In Fig. 2 we illustrate the positions of the S and I particles at different times for the system from Fig. 1. At tâ=â0.017 in Fig. 2a, most of the particles are still in state S and form a weakly clustered fluid in which MIPS does not occur. In Fig. 2b at tâ=â0.214, larger clusters are beginning to nucleate around the growing number of I particles, but the clusters are amorphous and fluctuate with time. At tâ=â0.325 in Fig. 2c and tâ=â0.342 in Fig. 2d a dominant crystalline cluster containing a mixture of S and I particles is emerging, while at tâ=â0.410 in Fig. 2e, there is now a dense triangular lattice composed entirely of I at the center of the cluster surrounded by a wetting layer of S on the outer edge of the cluster. In Fig. 2f at tâ=â0.504, the system consists of a dense triangular core of nonmotile particles with a halo-like region of lower density amorphous phase containing tracks, which we call a fragmented phase. This fragmented phase moves into the dense region as a well-defined front driven by the plowing effect of the remaining mobile S particles. At tâ=â0.590 in Fig. 2g, the dense core has been almost completely depleted and replaced by the fragmented phase. For tâ=â0.65 in Fig. 2h, the system is completely fragmented and contains only a small remnant of moving S particles, while Fig. 2i shows the tâ=â1.0 final state in which all of the particles are dead and form low density amorphous clusters that are separated by tracks. The initial dense phase formation can be viewed as a nucleation process since the poisoned particles act as nucleation sites for regions of increased collision frequency, leading to the generation of an even larger number of poisoned particles. It is known in active matter systems that for densities below the MIPS state, addition of walls or obstacles can induce the formation of localized MIPS regions43,44. In our case, although the dead particles can be pushed by the active particles, they still act as nucleation sites for MIPS. We note that if the infectivity rate is small, this nucleation effect is reduced. After the dense phase is formed there is still a small number of active particles present; however, since their number is low, they have few collisions among themselves and instead crash into the dense cluster phase, leaving plow marks or fragmenting tracks behind them. As these last active particles become poisoned, the fragmentation process stops before the whole cluster gets completely broken up by the plow marks.
From the time-dependent images and behavior of C and Z, we can identify several different regimes. For 0â<âtâ<â0.25 where Z, C and i are all low, only small clusters are present, as shown in Fig. 2a, b, while for 0.25â¤tâ<â0.45, we see the emergence of a large dense cluster reflected by the increase of C and Z in Fig. 1a, b. The cluster reaches its maximum size near the point at which iâ=â2/3 and sâ=â1/3. For 0.45 ⤠tâ<â0.75, the fragmentation region begins to form around the dense zone, resulting in a drop in C and Z in Fig. 1a, b, while for tâ¥0.75, the system is completely fragmented and contains only a small number of mobile S particles.
To further illustrate the behavior, we measure the time evolution of the local particle density Ïloc in a slice of the sample taken along the y direction. We plot a height map of Ïloc as a function of x position versus time t in Fig. 3a for the system from Fig. 2. The density remains uniform up to tâ=â0.2, but at later times a strong density peak appears in the center of the sample, corresponding to the formation of the dense crystalline phase. At larger times t, the fragmented state becomes visible with the appearance of strips of low density along the edges of the dense region.
By conducting a series of simulations at varied Ï, we construct a heat map of the time evolution of the patterns, shown in Fig. 3b in the form of a height field of the average coordination number Z plotted as a function of Ï versus t. For Ïâ>â5000, the system can form a dense phase, indicated by the green region, while for Ïââ¤â5000 the system remains in a uniform phase. This indicates that Brownian particles obeying the same S to I dynamics will only form a uniform nonmotile state, which we interpret to mean that the activity is essential for producing pattern formation. We note that in previous work for active matter systems, it was shown that MIPS does not occur for small persistence lengths18,22,43.
We tested the impact of the poisoning probability on the pattern formation, as shown in Fig. 4a where we plot a height field of Z as a function of Ï versus t for the same system as in Fig. 3b but for a lower βâ=â2âÃâ10â6. Here the clustering is strongly reduced. If we instead increase β to βâ=â3.2âÃâ10â5 for the same system, the clustering is strongly enhanced, as shown in the heat map of Z in Fig. 4b. In general, if β is very large, it is possible for a portion of the dense phase to persist to the end of the epidemic since the mobile particles become infected too quickly to be able to fragment the system, particularly when thermal fluctuations are absent.
Figure 4c shows the Z heat map diagram as a function of FM versus t for a system with Ïâ=â0.314 and Ïâ=â15000 at βâ=â3.2âÃâ10â5, where a cluster always forms at intermediate time and the fragmented phase appears at late time. We have also considered a system with higher Ï where a MIPS state appears at tâ=â0 for sufficiently large Ï even without poisoning. We first allow the system to organize into a MIPS state prior to adding the poisoned particles. When the tâ=â0 MIPS state is present, the addition of poisoning dynamics only slightly increases the amount of clustering at intermediate times, but in general, the poisoning breaks up the MIPS at later times. In Fig. 4d we show the Z heat map of the time evolution of the patterns as a function of Ï versus t for a higher Ïâ=â0.393 at βâ=â8.0âÃâ10â6. Here, for Ïâ>â9000 the system starts in a MIPS phase and shows a weak enhancement of the clustering prior to the onset of fragmentation, while for 4000â<âÏâ<â9000 the system transitions from a fluid cluster to a fragmented state. For Ïâ<â4000, the system is always in a fluid phase.
We have also considered the case of sudden random death, where there is no interaction between S and I particles, but instead S particles spontaneously transition to I with probability α. In Fig. 5a, b we plot C and Z versus time for a sudden death sample with Ïâ=â0.314 and Ïâ=â15000, which corresponds to a regime where transient clustering occurs for the poisoning model. The probability for any single particle to die in a given time step is αâ=â8âÃâ10â6.âThe s and i vs t curves appear in Fig. 5g. On average, the amount of simulation time required to transform the last S particle into I is much larger than for the contact poisoning model, leading to a more asymmetric shape of the curves as a function of rescaled time t. There are two effects contributing to this. First, in an SI model, particles making the greatest number of contacts are more likely to come into contact with infected particles and become infected more quickly, while the last surviving particles are typically the ones that have made the least contact with the infected particles. Such contact dynamics are irrelevant in the random death model. Second, there is no formation of a dense triangular phase in the random death model, and the largest cluster that forms is only of size Câ=â80. In Fig. 5c, we plot the sudden death pattern diagram in the form of a height field of Z as a function of Ï versus t for the same system as in Fig. 5a, b, indicating the lack of pattern formation over this range of Ï. In Fig. 5d, e we plot C and Z versus t for a sudden death sample with the same Ïâ=â15000 but at a higher density of Ïâ=â0.393. The s and i versus t curves are unaffected by Ï and appear in Fig. 5g. In this case, the system starts in a MIPS phase at tâ=â0, and the sudden death breaks up the cluster without creating any new clustering. The height field plot of Z as a function of Ï versus t in Fig. 5f for the Ïâ=â0.393 sample indicates that the transient clustering found under interacting SI dynamics does not occur in the sudden death model.
Figure 6aâc illustrates the particle configurations in the sudden death model for the lower density Ïâ=â0.314 system in Fig. 5aâc. At tâ=â0.1 in Fig. 6a, small clusters appear throughout the sample. In Fig. 6b at tâ=â0.3, the clusters have decreased in size and the number of I particles has increased, while Fig. 6c shows the final state in which I particles are spread everywhere throughout the sample separated by voids marking the plow tracks of the final S particles. The Ïâ=â0.393 sample from Fig. 5dâf is illustrated in Fig. 6dâf. At tâ=â0.1 in Fig. 6c, the system has not yet changed much from its initial MIPS state, but the MIPS cluster contains a moderate density of infected nonmotile I particles. In Fig. 6e at tâ=â0.3, the MIPS cluster is disintegrating, and in the final tâ=â1.0 configuration in Fig. 6f, a lower density fragmented state appears. These results indicate that contact poisoning is essential for producing the transient clustering, and that the random death model does not give the same types of patterns. This is also consistent with the loss of patterning in the contact poisoning model for low β, shown in Fig. 4a, where the odds of infection become low so that even if an S particle encounters a group of poisoned I particles, the S particle has a high chance of moving away before it becomes poisoned. For high values of β, shown in Fig. 4b, the S particle has a higher chance to become infected and effectively stick to a cluster of dead I particles, which serve as cluster nucleation sites. In this way, the low infectivity limit is closer to the random death model.
Discussion
Paoluzzi et al.45 considered a model of active particles that exchange information so that active particles can convert to inactive particles after colliding with an inactive particle. This system has some similarities to aggregation models and produces fractal-like aggregates of immobile particles, but this behavior is different from what we observe, where a time dependent dense compact cluster forms and then transitions to a fragmented state. In previous work, Forgács et al.34 considered the effect of quenched disorder on a run-and-tumble active matter model with susceptible, infected, and recovered states, where susceptible particles become infected with some probability upon contact with an infective, while infectives transition to recovered at a given rate. Here the quenched disorder can modify the behavior of the epidemic for low infection rates, while at high infectivity the quenched disorder has little effect. Libál et al.36 considered a more complex model with no spontaneous recovery but with a fourth species that can cure infected particles or become infected. In both of these studies, all of the particles remained mobile regardless of their epidemiological state, so there was no pattern formation as a result of susceptibles becoming infected. In the present work, the poisoning transition to an immobile state is responsible for the time-dependent pattern formation we observe.
In our model, even though the system is not in a MIPS regime, it can form a transient cluster similar to a MIPS phase that becomes fragmented by the remaining active particles. There are some differences between MIPS and the transient clustering. The active particles do not produce the transient clustering; instead, it is the result of the poisoning by dead I particles that act as nucleation sites and form dense regions in which the odds of a mobile S particle becoming poisoned are high. In contrast, for random death models where interactions between particles play no role in the transition to the I state, we do not observe any transient clustering. Our contact poisoning model should be relevant to physical active systems, since most such systems contain some constraint that can stop the mobility. This could include local depletion of resources needed for motion. A scenario in which individual particles carry their own source of fuel that can become exhausted would be more consistent with the random death model than with contact poisoning.
In our system we do not consider thermal fluctuations, but in bacteria or colloidal assemblies, such fluctuations will be relevant. Depending upon their relative magnitude, the thermal fluctuations could disrupt some of the pattern formation. Additionally, even if the thermal fluctuations are very weak, the fragmented cluster state that we find at the end of the poisoning process would over sufficiently long times gradually diffuse out into a uniform density state since our particles are hard disks. The relevance of this very long time behavior to a particular system will depend on the time scale of diffusive processes compared to any other time scale of interest. We expect that our results are of most relevance to systems where thermal effects are absent or are weak. For example, some experimental realizations in which this is the case include robotics or macroscale systems. Variations on our model could be considered in which the interactions between the particles are more complex, and this could modify the importance of any possible thermal fluctuations.
Another variation to consider is activation rather than poisoning, in which all of the particles are initially nonmotile but introduction of a small number of active particles can lead to the activation of additional particles through contact interactions. A competing scenario would be one in which nonmotile particles become active with some probability per time step, independent of interactions with other particles; this would be a sudden life model. In both cases, the final state would be that all particles would reach state S. It would be interesting to see whether the same sets of phases occur in reverse order or what would be the effect of adding spatial inhomogeneities46,47,48. Finally, an active matter SIS model in which infected particles stop moving while infected and then resume moving when recovered represents a third scenario that combines both of the previous ones. We surmise that the latter may, once suitably rescaled, behave as a more standard quenched active matter system.
Methods
We consider a two-dimensional system with periodic boundary conditions in the x and y directions of size LâÃâL with Lâ=â200.âWe typically focus on samples containing Nâ=â4000 run-and-tumble active particles, which are modeled as harmonically repulsive disks of radius raâ=â1.0. Unless otherwise noted, the disk density is \(\phi =N\pi {r}_{{{{{{{{\rm{a}}}}}}}}}^{2}/{L}^{2}=0.314\), low enough that the system does not enter the MIPS phase for the activity levels we consider.
The particles obey overdamped dynamics in which the time evolution of disk i is governed by the following equation of motion:
Here the particle velocity is viâ=âdri/dt, ri is the location of particle i, the damping constant ξâ=â1.0, and we use a time step of size Îtâ=â0.005. The disks interact sterically via a repulsive harmonic potential \({{{{{{{{\bf{F}}}}}}}}}_{i}^{{{{{{{{\rm{dd}}}}}}}}}=\mathop{\sum }\nolimits_{i\ne j}^{N}k(| {{{{{{{{\bf{r}}}}}}}}}_{ij}| -2{r}_{{{{{{{{\rm{a}}}}}}}}}){{\Theta }}(| {{{{{{{{\bf{r}}}}}}}}}_{ij}| -2{r}_{{{{{{{{\rm{a}}}}}}}}}){\hat{{{{{{{{\bf{r}}}}}}}}}}_{ij}\), where Î is the Heaviside step function, rijâ=âriââârj, \({\hat{{{{{{{{\bf{r}}}}}}}}}}_{ij}={{{{{{{{\bf{r}}}}}}}}}_{ij}/| {{{{{{{{\bf{r}}}}}}}}}_{ij}|\), and the repulsive spring force constant is kâ=â20.âThe activity arises from a motor force \({{{{{{{{\bf{F}}}}}}}}}_{i}^{{{{{{{{\rm{m}}}}}}}}}={F}_{{{{{{{{\rm{M}}}}}}}}}{\hat{{{{{{{{\bf{m}}}}}}}}}}_{i}\) of magnitude FM applied in a randomly chosen direction \({\hat{{{{{{{{\bf{m}}}}}}}}}}_{i}\). The tumbling time for a given particle i is chosen randomly at at the beginning of the simulation and during each tumbling event from the range Ïlâââ[Ï,â2Ï]. Thus individual particles do not have fixed tumbling times. After Ïl simulation time steps have elapsed, the particle selects a new randomly chosen direction of motion and a new value of Ïl specifying the amount of time that will pass before the next tumbling event. This model has been used previously to identify the transition to a MIPS phase and to study active matter versions of SIR34,36,49,50.
On top of the discrete dynamics described above, each particle carries a variable indicating whether it is currently in the S or I state. Particles in the I state have FM set to FMâ=â0, rendering their motor inoperative; however, these particles can still move if pushed by direct contact with active particles. After each simulation time step update of the particle positions using Eq. (1), we update the status of the mobile active particles. For each pair of an I particle in direct contact with an S particle (i.e., â£rijâ£â¤2ra), the S particle will change to I during that simulation time step with probability β. This adds an information exchange dynamic onto the active matter system. We consider values of β spanning the range 2âÃâ10â6ââ¤âβââ¤â3.2âÃâ10â5. To initialize the system, we place all particles at randomly chosen nonoverlapping positions and set all of the particles to S except for five randomly chosen poisoned I particles. The total duration of the poisoning process varies, in some cases substantially, from one realization to another. Thus in order to average the results over multiple realizations for a particular set of parameters, we normalize time by the total duration of the poisoning process, given by the time tend at which the final susceptible particle becomes infected.
Data availability
The authors declare that the data supporting the findings of this study are available within the paper.
References
Marchetti, M. C. et al. Hydrodynamics of soft active matter. Rev. Mod. Phys. 85, 1143â1189 (2013).
Bechinger, C. et al. Active particles in complex and crowded environments. Rev. Mod. Phys. 88, 045006 (2016).
Gompper, G. et al. The 2020 motile active matter roadmap. J. Phys.: Condens. Matter 32, 193001 (2020).
Helbing, D. Traffic and related self-driven many-particle systems. Rev. Mod. Phys. 73, 1067â1141 (2001).
Wang, G. et al. Emergent field-driven robot swarm states. Phys. Rev. Lett. 126, 108002 (2021).
Ben Zion, M. Y., Fersula, J., Bredeche, N. & Dauchot, O. Morphological computation and decentralized learning in a swarm of sterically interacting robots. Sci. Robot. 8, eabo6140 (2023).
Solon, A. P. et al. Pressure is not a state function for generic active fluids. Nat. Phys. 11, 673â678 (2015).
Takatori, S. C., Yan, W. & Brady, J. F. Swim pressure: Stress generation in active matter. Phys. Rev. Lett. 113, 028103 (2014).
Dabelow, L., Bo, S. & Eichhorn, R. Irreversibility in active matter systems: Fluctuation theorem and mutual information. Phys. Rev. X 9, 021009 (2019).
OâByrne, J., Kafri, Y., Tailleur, J. & van Wijland, F. Time irreversibility in active matter, from micro to macro. Nat. Rev. Phys. 4, 167â183 (2022).
Ray, D., Reichhardt, C. & Reichhardt, C. J. Olson Casimir effect in active matter systems. Phys. Rev. E 90, 013019 (2014).
Ni, R., Cohen Stuart, M. A. & Bolhuis, P. G. Tunable long range forces mediated by self-propelled colloidal hard spheres. Phys. Rev. Lett. 114, 018302 (2015).
Yan, W. & Brady, J. F. The force on a boundary in active matter. J. Fluid Mech. 785, R1 (2015).
Wagner, C. G., Hagan, M. F. & Baskaran, A. Steady states of active Brownian particles interacting with boundaries. J. Stat. Mech. 2022, 013208 (2022).
Speck, T. Collective forces in scalar active matter. Soft Matter 16, 2652 (2020).
Reichhardt, C. J. Olson & Reichhardt, C. Ratchet effects in active matter systems. Ann. Rev. Condens. Matter Phys. 8, 51â75 (2017).
Fily, Y. & Marchetti, M. C. Athermal phase separation of self-propelled particles with no alignment. Phys. Rev. Lett. 108, 235702 (2012).
Redner, G. S., Hagan, M. F. & Baskaran, A. Structure and dynamics of a phase-separating active colloidal fluid. Phys. Rev. Lett. 110, 055701 (2013).
Palacci, J., Sacanna, S., Steinberg, A. P., Pine, D. J. & Chaikin, P. M. Living crystals of light-activated colloidal surfers. Science 339, 936â940 (2013).
Buttinoni, I. et al. Dynamical clustering and phase separation in suspensions of self-propelled colloidal particles. Phys. Rev. Lett. 110, 238301 (2013).
Cates, M. E. & Tailleur, J. Motility-induced phase separation. Annu. Rev. Condens. Matter Phys. 6, 219â244 (2015).
Paoluzzi, M., Levis, D. & Pagonabarraga, I. From motility-induced phase-separation to glassiness in dense active matter. Commun. Phys. 5, 111 (2022).
Ni, R., Cohen Stuart, M. A., Dijkstra, M. & Bolhuis, P. G. Crystallizing hard-sphere glasses by doping with active particles. Soft Matter 10, 6609 (2014).
Kümmel, F., Shabestari, P., Lozano, C., Volpe, G. & Bechinger, C. Formation, compression and surface melting of colloidal clusters by active particles. Soft Matter 11, 6187â6191 (2015).
Massana-Cid, H., Codina, J., Pagonabarraga, I. & Tierno, P. Active apolar doping determines routes to colloidal clusters and gels. Proc. Natl. Acad. Sci. USA 115, 10618â10623 (2018).
Omar, A. K., Wu, Y., Wang, Z. G. & Brady, J. F. Swimming to stability: Structural and dynamical control via active doping. ACS Nano 13, 560 (2019).
Ramananarivo, S., Ducrot, E. & Palacci, J. Activity-controlled annealing of colloidal monolayers. Nat. Commun. 10, 3380 (2019).
Stenhammar, J., Wittkowski, R., Marenduzzo, D. & Cates, M. E. Activity-induced phase separation and self-assembly in mixtures of active and passive particles. Phys. Rev. Lett. 114, 018301 (2015).
Gokhale, S., Li, J., Solon, A., Gore, J. & Fakhri, N. Dynamic clustering of passive colloids in dense suspensions of motile bacteria. Phys. Rev. E 105, 054605 (2022).
Peruani, F. & Sibona, G. J. Dynamics and steady states in excitable mobile agent systems. Phys. Rev. Lett. 100, 168103 (2008).
Peruani, F. & Lee, C. F. Fluctuations and the role of collilsion duration in reaction-diffusion systems. EPL 102, 58001 (2013).
Paoluzzi, M., Leoni, M. & Marchetti, M. C. Information and motility exchange in collectives of active particles. Soft Matter 16, 6317 (2020).
Zhao, Y., Huepe, C. & Romanczuk, P. Contagion dynamics in self-organized systems of self-propelled agents. Sci. Rep. 12, 2588 (2022).
Forgács, P., Libál, A., Reichhardt, C., Hengartner, N. & Reichhardt, C. J. O. Using active matter to introduce spatial heterogeneity to the susceptible infected recovered model of epidemic spreading. Sci. Rep. 12, 11229 (2022).
RodrÃguez, J. P., Paoluzzi, M., Levis, D. & Starnini, M. Epidemic processes on self-propelled particles: continuum and agent-based modeling. Phys. Rev. Res. 4, 043160 (2022).
Libál, A. et al. Transition from susceptible-infected to susceptible-infected-recovered dynamics in a susceptible-cleric-zombie-recovered active matter model. Phys. Rev. E 107, 024604 (2023).
Tailleur, J. & Cates, M. E. Sedimentation, trapping, and rectification of dilute bacteria. EPL 86, 60002 (2009).
Sepúlveda, N. & Soto, R. Wetting transitions displayed by persistent active particles. Phys. Rev. Lett. 119, 078001 (2017).
Neta, P. D., Tasinkevych, M., Telo da Gama, M. M. & Dias, C. S. Wetting of a solid surface by active matter. Soft Matter 17, 2468â2478 (2021).
Turci, F. & Wilding, N. B. Wetting transition of active Brownian particles on a thin membrane. Phys. Rev. Lett. 127, 238002 (2021).
Kermack, W. O. & McKendrick, A. G. A contribution to the mathematical theory of epidemics. Proc. R. Soc. Lond. A 115, 700 (1927).
Hethcote, H. W. The mathematics of infectious diseases. SIAM Rev. 42, 599 (2000).
Caprini, L., Cecconi, F., Maggi, C. & Marini Bettolo Marconi, U. Activity-controlled clogging and unclogging of microchannels. Phys. Rev. Res. 2, 043359 (2020).
Harder, J., Mallory, S. A., Tung, C., Valeriani, C. & Cacciuto, A. The role of particle shape in active depletion. J. Chem. Phys. 141, 194901 (2014).
Paoluzzi, M., Leoni, M. & Marchetti, M. C. Fractal aggregation of active particles. Phys. Rev. E 98, 052603 (2018).
Morin, A., Desreumaux, N., Caussin, J.-B. & Bartolo, D. Distortion and destruction of colloidal flocks in disordered environments. Nat. Phys. 13, 63â67 (2017).
Bhattacharjee, T. & Dutta, S. S. Bacterial hopping and trapping in porous media. Nat. Commun. 10, 2075 (2019).
Forgács, P., Libál, A., Reichhardt, C. & Reichhardt, C. J. O. Active matter shepherding and clustering in inhomogeneous environments. Phys. Rev. E 104, 044613 (2021).
Reichhardt, C. & Olson Reichhardt, C. J. Active matter transport and jamming on disordered landscapes. Phys. Rev. E 90, 012701 (2014).
Sándor, C. S., Libál, A., Reichhardt, C. & Olson Reichhardt, C. J. Dynamic phases of active matter systems with quenched disorder. Phys. Rev. E 95, 032606 (2017).
Acknowledgements
This work was supported by the US Department of Energy through the Los Alamos National Laboratory. Los Alamos National Laboratory is operated by Triad National Security, LLC, for the National Nuclear Security Administration of the US Department of Energy (Contract No. 892333218NCA000001). N.H. benefited from resources provided by the Center for Nonlinear Studies (CNLS). A.L. was supported by a grant from the Romanian Ministry of Education and Research, CNCS - UEFISCDI, project number PN-III-P4-ID-PCE-2020-1301, within PNCDI III.
Author information
Authors and Affiliations
Contributions
C.R., C.J.O.R., and N.H. conceived the project. P.F. and A.L. performed the simulations and analyzed the data. All authors discussed the results and wrote the manuscript.
Corresponding author
Ethics declarations
Competing interests
The authors declare no competing interests.
Peer review
Peer review information
Communications Physics thanks the anonymous reviewers for their contribution to the peer review of this work.
Additional information
Publisherâs note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Rights and permissions
Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the articleâs Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the articleâs Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
About this article
Cite this article
Forgács, P., Libál, A., Reichhardt, C. et al. Transient pattern formation in an active matter contact poisoning model. Commun Phys 6, 294 (2023). https://doi.org/10.1038/s42005-023-01387-7
Received:
Accepted:
Published:
DOI: https://doi.org/10.1038/s42005-023-01387-7