Rhythmic activities, which are usually driven by pacemakers, are common in biological systems. In noisy excitable media, pacemakers are self-organized firing clusters, but the underlying dynamics remains to be elucidated. Here we develop a Kramers rate theory of coupled cells to describe the firing properties of pacemakers and their dependence on coupling strength and system size and dimension. The theory captures accurately the simulation results of tissue models with stochastic Hodgkin-Huxley equations except when transitions from pacemakers to spiral waves occur under weak coupling.

Myriads of cilia beat on ciliated epithelia, which are ubiquitous in life. When ciliary beats are synchronized, metachronal waves emerge, whose direction of propagation depends on the living system in an unexplained way. We show on a reconstructed human bronchial epithelium in vitro that the direction of propagation is determined by the ability of mucus to be transported at the epithelial surface. Numerical simulations show that longitudinal waves maximize the transport of mucus while transverse waves, observed when the mucus is rigid and still, minimize the energy dissipated by the cilia.

We derive the long-time dynamics of a tracer immersed in a one-dimensional active bath. In contrast to previous studies, we find that the damping and noise correlations possess long-time tails with exponents that depend on the tracer symmetry. For generic tracers, shape asymmetry induces ratchet effects that alter fluctuations and lead to superdiffusion and friction that grows with time when the tracer is dragged at a constant speed. In the singular limit of a completely symmetric tracer, we recover normal diffusion and finite friction. Furthermore, for small symmetric tracers, the active contribution to the friction becomes negative: active particles enhance motion rather than oppose it. These results show that, in low-dimensional systems, the motion of a passive tracer in an active bath cannot be modeled as a persistent random walker with a finite correlation time.

The continuous adaptation of networks like our vasculature ensures optimal network performance when challenged with changing loads. Here, we show that adaptation dynamics allow a network to memorize the position of an applied load within its network morphology. We identify that the irreversible dynamics of vanishing network links encode memory. Our analytical theory successfully predicts the role of all system parameters during memory formation, including parameter values which prevent memory formation. We thus provide analytical insight on the theory of memory formation in disordered systems.

Although the transport and mixing of proteins and other molecules inside bacteria rely on the diffusion of molecules, many aspects of the molecular diffusion in bacterial cytoplasm remain unclear or controversial, including how the diffusion-temperature relation follows the Stokes-Einstein equation. In this study, we applied single-particle tracking photoactivated localization microscopy to investigate the diffusion of histonelike nucleoid structuring (HNS) proteins and free dyes in bacterial cytoplasm at different temperatures. Although the diffusion of HNS proteins in both live and dead bacteria increased at higher temperatures and appeared to follow the Arrhenius equation, the diffusion of free dyes decreased at higher temperatures, questioning the previously proposed theories based on superthermal fluctuations. To understand the measured diffusion-temperature relations, we developed an alternative model, in which the bacterial cytoplasm is considered as a polymeric network or mesh. In our model, the Stokes-Einstein equation remains valid, while the polymeric network contributes a significant term to the viscosity experienced by the molecules diffusing in bacterial cytoplasm. Our model was successful in predicting the diffusion-temperature relations for both HNS proteins and free dyes in bacteria. In addition, we systematically examined the predicted diffusion-temperature relations with different parameters in the model, and predicted the possible existence of phase transitions.

We perform experiments and computer simulations to study the effective interactions between like-charged colloidal tracers moving in a two-dimensional fluctuating background of colloidal crystal. By a counting method that properly accounts for the configurational degeneracy of tracer pairs, we extract the relative probability of finding a tracer pair in neighboring triangular cells formed by background particles. We find that this probability at the nearest neighbor cell is remarkably greater than those at cells with larger separations, implying an effective attraction between the tracers. This effective attraction weakens sharply as the background lattice constant increases. Furthermore, we clarify that the lattice-mediated effective attraction originates from the minimization of free energy increase from deformation of the crystalline background due to the presence of diffusing tracers.

A family of marginally rigid (isostatic) spring networks with fractal structure up to a controllable length was devised, and the viscoelastic spectra $G^{*}(\omega )$ calculated. Two nontrivial scaling regimes were observed, (i) $G^{\prime }\approx G^{\prime \prime }\propto {\omega }^{\mathrm{\Delta }}$ at low frequencies, consistent with $\mathrm{\Delta }=1/2$, and (ii) $G^{\prime }\propto G^{\prime \prime }\propto {\omega }^{{\mathrm{\Delta }}^{\prime }}$ for intermediate frequencies corresponding to fractal structure, consistent with a theoretical prediction ${\mathrm{\Delta }}^{\prime }=(\ln 3-\ln 2)/(\ln 3+\ln 2)$. The crossover between these two regimes occurred at lower frequencies for larger fractals in a manner suggesting diffusivelike dispersion. Solid gels generated by introducing internal stresses exhibited similar behavior above a low-frequency cutoff, indicating the relevance of these findings to real-world applications.

When subjected to sufficiently strong velocity gradients, solutions of long, flexible polymers exhibit flow instabilities and chaotic motion, often referred to as elastic turbulence. Its mechanism differs from the familiar, inertia-driven turbulence in Newtonian fluids and is poorly understood. Here, we demonstrate that the dynamics of purely elastic pressure-driven channel flows of dilute polymer solutions are organized by exact coherent structures that take the form of two-dimensional traveling waves. Our results demonstrate that no linear instability is required to sustain such traveling wave solutions and that their origin is purely elastic in nature. We show that the associated stress profiles are characterized by thin, filamentlike arrangements of polymer stretch, which is sustained by a solitary pair of vortices. We discuss the implications of the traveling wave solutions for the transition to elastic turbulence in straight channels and propose ways for their detection in experiments.

Many dense particulate suspensions show a stress induced transformation from a liquidlike state to a solidlike shear jammed (SJ) state. However, the underlying particle-scale dynamics leading to such striking, reversible transition of the bulk remains unknown. Here, we study transient stress relaxation behaviour of SJ states formed by a well-characterized dense suspension under a step strain perturbation. We observe a strongly nonexponential relaxation that develops a sharp discontinuous stress drop at short time for high enough peak-stress values. High resolution boundary imaging and normal stress measurements confirm that such stress discontinuity originates from the localized plastic events, whereas system spanning dilation controls the slower relaxation process. We also find an intriguing correlation between the nature of transient relaxation and the steady-state shear jamming phase diagram obtained from the Wyart-Cates model.

We demonstrate, via numerical simulations, that the relaxation dynamics of supercooled liquids correlates well with a plastic length scale measuring a particle’s response to impulsive localized perturbations and weakly to measures of local elasticity. We find that the particle averaged plastic length scale vanishes linearly in temperature and controls the super-Arrhenius temperature dependence of the relaxation time. Furthermore, we show that the plastic length scale of individual particles correlates with their typical displacement at the relaxation time. In contrast, the local elastic response only correlates with the dynamics on the vibrational timescale.

We present a simple model describing the assembly and disassembly of heteropolymers consisting of two types of monomers $A$ and $B$. We prove that no matter how we manipulate the concentrations of $A$ and $B$, it takes longer than the exponential function of $d$ to synthesize a fixed amount of the desired heteropolymer, where $d$ is the number of $A\text{−}B$ connections. We also prove the decomposition time is linear for chain length $n$. When $d$ is proportional to $n$, synthesis and destruction have an exponential asymmetry. Our findings may facilitate research on the more general asymmetry of operational hardness.

Motile bacteria are known to accumulate at surfaces, eventually leading to changes in bacterial motility and biofilm formation. We use a novel two-color, three-dimensional Lagrangian tracking technique to follow simultaneously the body and the flagella of a wild-type Escherichia coli. We observe long surface residence times and surface escape corresponding mostly to immediately antecedent tumbling. A motility model accounting for a large behavioral variability in run-time duration reproduces all experimental findings and gives new insights into surface trapping efficiency.

To search for experimental signals of the Gardner crossover, an active quasithermal granular glass is constructed using a monolayer of air-fluidized star-shaped particles. The pressure of the system is controlled by adjusting the tension exerted on an enclosing boundary. Velocity distributions of the internal particles and the scaling of the pressure, density, effective temperature, and relaxation time are examined, demonstrating that the system has key features of a thermal system. Using a pressure-based quenching protocol that brings the system into deeper glassy states, signals of the Gardner crossover are detected via cage size and separation order parameters for both particle positions and orientations, offering experimental evidence of Gardner physics for a system of anisotropic quasithermal particles in a low spatial dimension.

Granular packings display a wealth of mechanical features that are of widespread significance. One of these features is creep: the slow deformation under applied stress. Creep is common for many other amorphous materials such as many metals and polymers. The slow motion of creep is challenging to understand, probe, and control. We probe the creep properties of packings of soft spheres with a sinking ball viscometer. We find that in our granular packings, creep persists up to large strains and has a power law form, with diffusive dynamics. The creep amplitude is exponentially dependent on both applied stress and the concentration of hydrogel, suggesting that a competition between driving and confinement determines the dynamics. Our results provide insights into the mechanical properties of soft solids and the scaling laws provide a clear benchmark for new theory that explains creep, and provide the tantalizing prospect that creep can be controlled by a boundary stress.

The stretchability of polymeric materials is critical to many applications such as flexible electronics and soft robotics, yet the stretchability of conventional cross-linked linear polymers is limited by the entanglements between polymer chains. We show using molecular dynamics simulations that cross-linked ring polymers are significantly more stretchable than cross-linked linear polymers. Compared to linear polymers, the entanglements between ring polymers do not act as effective cross-links. As a result, the stretchability of cross-linked ring polymers is determined by the maximum extension of polymer strands between cross-links, rather than between trapped entanglements as in cross-linked linear polymers. The more compact conformation of ring polymers before deformation also contributes to the increase in stretchability.

Over the past two decades, a large number of studies addressed the topic of crystal nucleation in suspensions of hard spheres. The shared result of all these efforts is that, at low supersaturations, experimentally observed nucleation rates and numerically computed ones differ by more than 10 orders of magnitude. We present precise simulation results of crystal nucleation rate densities in the metastable hard sphere liquid. To compare these rate densities to experimentally measured ones, we propose an interpretation of the experimental data as a combination of nucleation and crystal growth processes (rather than purely the nucleation process). This interpretation may resolve the long-standing dispute about the differing rates.

Self- and cross-correlation dynamics of deeply supercooled liquids were recently identified using photon correlation spectroscopy on the one hand and dielectric investigations on the other. These results fueled a controversial discussion whether the “generic” response identified by photon correlation spectroscopy, or rather the nonuniversal dielectric response, reflect the liquid’s structural relaxation. The present study employs physical aging and oscillatory shear rheology to directly access the structural relaxation of a nonassociating glass-forming liquid and reveals that collective equilibrium fluctuations of simple liquids and not single-particle dynamics govern their structural relaxation. The present results thus challenge recent views that the glassy response of polar supercooled liquids can generically be decomposed into a Debye-type, supramolecular response and a single-particle dynamics with the latter reflecting the “true” structural relaxation. Furthermore, the current findings underscore the pivotal role dielectric spectroscopy plays in glass science as one of the rare molecular-level reorientation techniques that senses dynamical cooperativity directly.