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Bryce Palmer

Publications and source records attributed to Bryce Palmer.

6 recordsLinked to original sources

The physical consequences of sperm gigantism

The male fruit fly produces ~1.8 mm long sperm, thousands of which can be stored until mating in a ~200 micron sac, the seminal vesicle. While the evolutionary pressures driving such extreme sperm (flagellar) lengths have long been investigated, the physical consequences of their gigantism are unstudied. Through high-resolution three-dimensional reconstructions of in vivo sperm morphologies and rapid live imaging, we discovered that stored sperm are organized into a dense and highly aligned state. The packed flagella exhibit system-wide collective 'material' flows, with persistent and slow-moving topological defects; individual sperm, despite their extraordinary lengths, propagate rapidly through the flagellar material, moving in either direction along material director lines. To understand how these collective behaviors arise from the constituents' nonequilibrium dynamics, we conceptualize the motion of individual sperm as topologically confined to a reptation-like tube formed by its neighbors. Therein, sperm propagate through observed amplitude-constrained and internally driven flagellar bending waves, pushing off counter-propagating neighbors. From this conception, we derive a continuum theory that produces an extensile material stress that can sustain an aligned flagellar material. Experimental perturbations and simulations of active elastic filaments verify our theoretical predictions. Our findings suggest that active stresses in the flagellar material maintain the sperm in an unentangled, hence functional state, in both sexes, and establish giant sperm in their native habitat as a novel and physiologically relevant active matter system.

cond-mat.soft

Smooth-Rigid-Body Contact as a ReLCP: A Recursively Generated Linear Complementarity Problem

This paper reformulates complementarity-based time-stepping for frictionless nonsmooth contact between smooth rigid bodies as a recursively generated linear complementarity problem (ReLCP), involving a sequence of LCPs of increasing dimension. Starting from a classical single-constraint shared-normal signed-distance (SNSD) LCP, the method adds unilateral constraints only when the discrete-time update predicted by the current contact set would violate nonpenetration of the underlying smooth surfaces. The resulting procedure acts directly on smooth geometry, enforces nonpenetration to a prescribed tolerance, and avoids the oversampling inherent to proxy-surface contact models such as tessellations or multi-sphere decompositions, for which improved geometric fidelity can drive rapid growth in constraint count and cost. For strictly convex bodies, we prove that an initially overlap free configuration with sufficiently small timestep sizes, imply finite termination of the adaptive augmentation, and yield a unique discrete-time velocity update. In the small timestep limit and for any fixed overlap-free discrete state with a fixed geometric overlap tolerance, we prove that the recursion terminates after the initial solve, reducing the method to the classical single-constraint SNSD LCP and retaining the usual consistency of complementarity time-stepping with the underlying differential variational inequality. Numerical tests on colliding ellipsoids, compacting ellipsoid suspensions, growing bacterial colonies, and taut chainmail networks demonstrate stable large-timestep behavior, bounded interpenetration without discretization-induced surface roughness, and substantial reductions in both active constraint counts and runtime relative to representative discrete-surface complementarity formulations.

cs.RO

Correlations, mean-field limits, and transition to the concentrated regime in motile particle suspensions

Suspensions of swimming particles exhibit complex collective behaviors driven by hydrodynamic interactions, showing persistent large-scale flows and long-range correlations. While heavily studied, it remains unclear how such structures depend on the system size and swimmer concentration. To address these issues, we simulate very large systems of suspended swimmers across a range of system sizes and volume fractions. For this we use high-performance simulation tools that build on slender body theory and implicit resolution of steric interactions. At low volume fractions and long times, the particle simulations reveal dynamic flow structures and correlation functions that scale with the system size. These results are consistent with a mean-field limit and agree well with a corresponding kinetic theory. At higher concentrations, the system departs from mean-field behavior. Flow structures become cellular, and correlation lengths scale with the particle size. Here, translational motion is suppressed, while rotational dynamics dominate. These findings highlight the limitations of dilute mean-field models and reveal new behaviors in dense active suspensions.

cond-mat.soft

Mechanics and morphology of proliferating cell collectives with self-inhibiting growth

We study the dynamics of proliferating cell collectives whose microscopic constituents' growth is inhibited by macroscopic growth-induced stress. Discrete particle simulations of a growing collective show the emergence of concentric-ring patterns in cell size whose spatio-temporal structure is closely tied to the individual cell's stress response. Motivated by these observations, we derive a multiscale continuum theory whose parameters map directly to the discrete model. Analytical solutions of this theory show the concentric patterns arise from anisotropically accumulated resistance to growth over many cell cycles. This work shows how purely mechanical processes can affect the internal patterning and morphology of cell collectives, and provides a concise theoretical framework for connecting the micro- to macroscopic dynamics of proliferating matter.

physics.bio-ph

OpenRAND: A Performance Portable, Reproducible Random Number Generation Library for Parallel Computations

We introduce OpenRAND, a C++17 library aimed at facilitating reproducible scientific research through the generation of statistically robust and yet replicable random numbers. OpenRAND accommodates single and multi-threaded applications on CPUs and GPUs and offers a simplified, user-friendly API that complies with the C++ standard's random number engine interface. It is portable: it functions seamlessly as a lightweight, header-only library, making it adaptable to a wide spectrum of software and hardware platforms. It is statistically robust: a suite of built-in tests ensures no pattern exists within single or multiple streams. Despite the simplicity and portability, it is remarkably performant-matching and sometimes even outperforming native libraries by a significant margin. Our tests, including a Brownian walk simulation, affirm its reproducibility and highlight its computational efficiency, outperforming CUDA's cuRAND by up to 1.8 times.

cs.DC

Hydrodynamic instabilities and collective dynamics in activity-balanced pusher-puller mixtures

Microorganisms living in microfluidic environments often form multi-species swarms, where they can leverage collective motions to achieve enhanced transport and spreading. Nevertheless, there is a general lack of physical understandings of the origins of the multiscale unstable dynamics observed within these systems. Here, we build a computational model to study binary suspensions of rear- and front-actuated microswimmers, or respectively the so-called "pusher" and "puller" particles, that have different populations and swimming speeds. We perform direct particle simulations to reveal that collective system dynamics are possible even in the scenario of an "activity-balanced" mixture, which produces near zero mean extra stress. We first construct a continuum kinetic model to describe the initial transient period when the system is near uniform isotropy and then perform linear stability analysis to reveal the system's finite-wavelength hydrodynamic instabilities, in contrast with the long-wavelength instabilities of pure pusher/puller suspensions. Then, we carry out slender-body discrete particle simulations to resolve both the short time instabilities and the the longtime dynamics, which feature non-trivial density fluctuations and spatially-correlated motions, distinct from those of single-species.

physics.flu-dyn