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BingKan Xue

Publications and source records attributed to BingKan Xue.

16 recordsLinked to original sources

Effect of environmental variation on the benefits of learning

Signal recognition plays a critical role in species interactions and can be enhanced by learning signal characteristics through experience. In brood parasitism, host species may use visual cues to recognize and reject parasite eggs from their nests; because egg appearances vary within and between host individuals, a host can improve recognition by learning a tailored template of its own eggs. Nevertheless, constitutive and induced costs of learning may inhibit an extended learning period. We use a simple model of signal detection and learning to study how the benefits of learning are affected by different sources of variation in the learning signal. We find that phenotypic variation in egg appearances within a host hinders learning by adding noise to the signals, whereas genotypic variation between individuals promotes learning by carrying more information in the signals. Moreover, we consider environmental variation that can cause egg appearances to fluctuate across clutches over time. We find that such environmental variation reduces the fitness of learning hosts by distorting the signals, creating an effective cost that can offset the benefits of learning. Our results imply that learning or even a brief period of imprinting may be evolutionarily disfavored in homogeneous populations and variable environments.

physics.bio-ph

Modeling and Inferring Metacommunity Dynamics with Maximum Caliber

A major challenge for community ecology is using spatio-temporal data to infer parameters of dynamical models without conducting laborious experiments. We present a novel framework from statistical physics -- Maximum Caliber -- to characterize the temporal dynamics of complex ecological systems in spatially extended landscapes and infer parameters from empirical data. As an extension of Maximum Entropy modeling, Maximum Caliber aims at modeling the probability of possible trajectories of a stochastic system, rather than focusing on system states. We demonstrate the ability of the Maximum Caliber framework to capture ecological processes ranging from near- to far from- equilibrium, using an array of species interaction motifs including random interactions, apparent competition, intraguild predation, and non-transitive competition, along with dispersal among multiple patches. For spatio-temporal data of species occupancy in a metacommunity, the parameters of a Maximum Caliber model can be estimated through a simple logistic regression to reveal migration rates between patches, interactions between species, and local environmental suitabilities. We test the accuracy of the method over a range of system sizes and time periods, and find that these parameters can be estimated without bias. We introduce ``entropy production'' as a measure of irreversibility in system dynamics, and use ``pseudo-$R^2$'' to characterize predictability of future states. We show that our model can predict the dynamics of metacommunities that are far from equilibrium. The capacity to estimate basic parameters of dynamical metacommunity models from spatio-temporal data represents an important breakthrough for the study of metacommunities with application to practical problems in conservation and restoration ecology.

q-bio.PE

Dynamic trait distribution as a source for shifts in interaction strength and population density

Intraspecific trait variation has been increasingly recognized as an important factor in determining species interaction and diversity. Eco-evolutionary models have studied the distribution of trait values within a population that changes over the generations as a result of selection and heritability. Non-heritable traits that can change within the lifetime, such as behavior, can cause trait-mediated indirect effects, often studied by modeling the dynamics of a homogeneous trait. Complementary to these two approaches, we study the distribution of traits within a population and its dynamics on short timescales due to ecological processes. We consider several mechanisms by which the trait distribution can shift dynamically: phenotypic plasticity within each individual, differential growth among individuals, and preferential consumption by the predator. Through a simple predator-prey model that explicitly tracks the trait distribution within the prey, we illustrate some unusual consequences of trait shifts, including the healthy herd effect and the emergent promotion of the prey by the predator. We analyze the cause of these phenomena by identifying the density and trait effects from the predator. Our results show that intraspecific trait variation and the dynamics of its distribution can lead to the modification of species interactions and result in outcomes that are otherwise unexpected.

q-bio.PE

The value of internal memory for population growth in varying environments

In varying environments it is beneficial for organisms to utilize available cues to infer the conditions they may encounter and express potentially favorable traits. However, external cues can be unreliable or too costly to use. We consider an alternative strategy where organisms exploit internal sources of information. Even without sensing environmental cues, their internal states may become correlated with the environment as a result of selection, which then form a memory that helps predict future conditions. To demonstrate the adaptive value of such internal memory in varying environments, we revisit the classic example of seed dormancy in annual plants. Previous studies have considered the germination fraction of seeds and its dependence on environmental cues. In contrast, we consider a model of germination fraction that depends on the seed age, which is an internal state that can serve as a memory. We show that, if the environmental variation has temporal structure, then age-dependent germination fractions will allow the population to have an increased long-term growth rate. The more organisms can remember through their internal states, the higher growth rate a population can potentially achieve. Our results suggest experimental ways to infer internal memory and its benefit for adaptation in varying environments.

q-bio.PE

Robust retrieval of dynamic sequences through interaction modulation

Many biological systems dynamically rearrange their components through a sequence of configurations in order to perform their functions. Such dynamic processes have been studied using network models that sequentially retrieve a set of stored patterns. Previous models of sequential retrieval belong to a general class in which the components of the system are controlled by a feedback ("input modulation"). In contrast, we introduce a new class of models in which the feedback modifies the interactions among the components ("interaction modulation"). We show that interaction modulation models are not only capable of retrieving dynamic sequences, but they do so more robustly than input modulation models. In particular, we find that modulation of symmetric interactions allows retrieval of patterns with different activity levels and has a much larger dynamic capacity. Our results suggest that interaction modulation may be a common principle underlying biological systems that show complex collective dynamics.

cond-mat.stat-mech

Heterogeneity of Interaction Strengths and Its Consequences on Ecological Systems

Ecosystems are formed by networks of species and their interactions. Traditional models of such interactions assume a constant interaction strength between a given pair of species. However, there is often significant trait variation among individual organisms even within the same species, causing heterogeneity in their interaction strengths with other species. The consequences of such heterogeneous interactions for the ecosystem have not been studied systematically. As a theoretical exploration, we analyze a simple ecosystem with trophic interactions between two predators and a shared prey, which would exhibit competitive exclusion in models with homogeneous interactions. We consider several scenarios where individuals of the prey species differentiate into subpopulations with different interaction strengths. We show that in all these cases, whether the heterogeneity is inherent, reversible, or adaptive, the ecosystem can stabilize at a new equilibrium where all three species coexist. Moreover, the prey population that has heterogeneous interactions with its predators reaches a higher density than it would without heterogeneity, and can even reach a higher density in the presence of two predators than with just one. Our results suggest that heterogeneity may be a naturally selected feature of ecological interactions that have important consequences for the stability and diversity of ecosystems.

q-bio.PE

Effect of compositional fluctuation on the survival of bet-hedging species

Understanding the coexistence of diverse species in a changing environment is an important problem in community ecology. Bet-hedging is a strategy that helps species survive in such changing environments. However, studies of bet-hedging have often focused on the expected long-term growth rate of the species by itself, neglecting competition with other coexisting species. Here we study the extinction risk of a bet-hedging species in competition with others. We show that there are three contributions to the extinction risk. The first is the usual demographic fluctuation due to stochastic reproduction and selection processes in finite populations. The second, due to the fluctuation of population growth rate caused by environmental changes, may counterintuitively reduce the extinction risk for small populations. Besides those two, we reveal a third contribution, which is unique to bet-hedging species that diversify into multiple phenotypes: The phenotype composition of the population will fluctuate over time, resulting in increased extinction risk. We compare such compositional fluctuation to the demographic and environmental contributions, showing how they have different effects on the extinction risk depending on the population size, generation overlap, and environmental correlation.

physics.bio-ph

Geometry of environment-to-phenotype mapping: Unifying adaptation strategies in varying environments

Biological organisms exhibit diverse strategies for adapting to varying environments. For example, a population of organisms may express the same phenotype in all environments (`unvarying strategy'), or follow environmental cues and express alternative phenotypes to match the environment (`tracking strategy'), or diversify into coexisting phenotypes to cope with environmental uncertainty (`bet-hedging strategy'). We introduce a general framework for studying how organisms respond to environmental variations, which models an adaptation strategy by an abstract mapping from environmental cues to phenotypic traits. Depending on the accuracy of environmental cues and the strength of natural selection, we find different adaptation strategies represented by mappings that maximize the longterm growth rate of a population. The previously studied strategies emerge as special cases of our model: the tracking strategy is favorable when environmental cues are accurate, whereas when cues are noisy, organisms can either use an unvarying strategy or, remarkably, use the uninformative cue as a source of randomness to bet-hedge. Our model of the environment-to-phenotype mapping is based on a network with hidden units; the performance of the strategies is shown to rely on having a high-dimensional internal representation, which can even be random.

q-bio.PE

Regularization of the big bang singularity with random perturbations

We show how to regularize the big bang singularity in the presence of random perturbations modeled by Brownian motion using stochastic methods. We prove that the physical variables in a contracting universe dominated by a scalar field can be continuously and uniquely extended through the big bang as a function of time to an expanding universe only for a discrete set of values of the equation of state satisfying special co-prime number conditions. This result significantly generalizes a previous result \cite{Xue:2014} that did not model random perturbations. This result implies that the extension from a contracting to an expanding universe for the discrete set of co-prime equation of state is robust, which is a surprising result. Implications for a purely expanding universe are discussed, such as a non-smooth, randomly varying scale factor near the big bang.

gr-qc

Bet-hedging against demographic fluctuations

Biological organisms have to cope with stochastic variations in both the external environment and the internal population dynamics. Theoretical studies and laboratory experiments suggest that population diversification could be an effective bet-hedging strategy for adaptation to varying environments. Here we show that bet-hedging can also be effective against demographic fluctuations that pose a trade-off between growth and survival for populations even in a constant environment. A species can maximize its overall abundance in the long term by diversifying into coexisting subpopulations of both "fast-growing" and "better-surviving" individuals. Our model generalizes statistical physics models of birth-death processes to incorporate dispersal, during which new populations are founded, and can further incorporate variations of local environments. In this way we unify different bet-hedging strategies against demographic and environmental variations as a general means of adaptation to both types of uncertainties in population growth.

q-bio.PE

Regularization of the big bang singularity with a time varying equation of state $w > 1$

We study the classical dynamics of the universe undergoing a transition from contraction to expansion through a big bang singularity. The dynamics is described by a system of differential equations for a set of physical quantities, such as the scale factor $a$, the Hubble parameter $H$, the equation of state parameter $w$, and the density parameter $Ω$. The solutions of the dynamical system have a singularity at the big bang. We study if the solutions can be regularized at the singularity in the sense of whether they have unique branch extensions through the singularity. In particular, we consider the model in which the contracting universe is dominated by a scalar field with a time varying equation of state $w$, which approaches a constant value $w_c$ near the singularity. We prove that, for $w_c > 1$, the solutions are regularizable only for a discrete set of $w_c$ values that satisfy a coprime number condition. Our result implies that the evolution of a bouncing universe through the big bang singularity does not have a continuous classical limit unless the equation of state is extremely fine-tuned.

gr-qc

Nonperturbative analysis of the evolution of cosmological perturbations through a nonsingular bounce

In bouncing cosmology, the primordial fluctuations are generated in a cosmic contraction phase before the bounce into the current expansion phase. For a nonsingular bounce, curvature and anisotropy grow rapidly during the bouncing phase, raising questions about the reliability of perturbative analysis. In this paper, we study the evolution of adiabatic perturbations in a nonsingular bounce by nonperturbative methods including numerical simulations of the nonsingular bounce and the covariant formalism for calculating nonlinear perturbations. We show that the bounce is disrupted in regions of the universe with significant inhomogeneity and anisotropy over the background energy density, but is achieved in regions that are relatively homogeneous and isotropic. Sufficiently small perturbations, consistent with observational constraints, can pass through the nonsingular bounce with negligible alteration from nonlinearity. We follow scale invariant perturbations generated in a matter-like contraction phase through the bounce. Their amplitude in the expansion phase is determined by the growing mode in the contraction phase, and the scale invariance is well preserved across the bounce.

gr-qc

The four fixed points of scale invariant single field cosmological models

We introduce a new set of flow parameters to describe the time dependence of the equation of state and the speed of sound in single field cosmological models. A scale invariant power spectrum is produced if these flow parameters satisfy specific dynamical equations. We analyze the flow of these parameters and find four types of fixed points that encompass all known single field models. Moreover, near each fixed point we uncover new models where the scale invariance of the power spectrum relies on having simultaneously time varying speed of sound and equation of state. We describe several distinctive new models and discuss constraints from strong coupling and superluminality.

hep-th

Evolution of curvature and anisotropy near a nonsingular bounce

We consider bouncing cosmologies in which an ekpyrotic contraction phase with w >> 1 is followed by a bouncing phase with w < -1 that violates the null energy condition. The bouncing phase, induced by ghost condensation, is designed to produce a classically nonsingular bounce at a finite value of the scale factor. We show that the initial curvature and anisotropy, though diluted during the ekpyrotic phase, grow back exponentially during the bouncing phase. Moreover, curvature perturbations and anisotropy are generated by quantum fluctuations during the ekpyrotic phase. In the bouncing phase, however, an adiabatic curvature perturbation grows to dominate and contributes a blue spectrum that spoils the scale-invariance. Meanwhile, a scalar shear perturbation grows nonlinear and creates an overwhelming anisotropy that disrupts the nonsingular bounce altogether.

hep-th

Unstable growth of curvature perturbation in non-singular bouncing cosmologies

We consider non-singular bouncing cosmologies, such as the new ekpyrotic model, in which the universe undergoes a slow contraction phase with equation of state $w \gg 1$, followed by a bounce that occurs at a finite scale factor when quantum gravity corrections are still negligible. Such a non-singular bounce requires a violation of the null energy condition in which $w$ falls below -1 at some time before the bounce. In this paper, we show that a component of the adiabatic curvature perturbations, though decaying and negligible during the ekpyrotic phase, is exponentially amplified just before $w$ approaches -1, enough to spoil the scale-invariant perturbation spectrum. We discuss how the problem may be avoided, for example, in singular bounces.

hep-th

Muon Charge Information from Geomagnetic Deviation in Inclined Extensive Air Showers

We propose to extract the charge information of high energy muons in very inclined extensive air showers by analyzing their relative lateral positions in the shower transverse plane. We calculate the muon lateral deviation under the geomagnetic field and compare it to dispersive deviations from other causes. By our criterion of resolvability, positive and negative muons with energies above $10^4$ GeV will be clearly separated into two lobes if the shower zenith angle is larger than $70^\circ$. Thus we suggest a possible approach to measure the $μ^+ / μ^-$ ratio for high energy muons.

astro-ph