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Bistable systems

Frank M Hilker, Marta Paliga, Ezio Venturino
Social predators benefit from cooperation in the form of increased hunting success, but may be at higher risk of disease infection due to living in groups. Here, we use mathematical modeling to investigate the impact of disease transmission on the population dynamics benefits provided by group hunting. We consider a predator-prey model with foraging facilitation that can induce strong Allee effects in the predators. We extend this model by an infectious disease spreading horizontally and vertically in the predator population...
August 9, 2017: Bulletin of Mathematical Biology
Rakesh Das, Manoranjan Kumar, Shradha Mishra
We introduce a lattice model for active nematic composed of self-propelled apolar particles, study its different ordering states in the density-temperature parameter space, and compare with the corresponding equilibrium model. The active particles interact with their neighbours within the framework of the Lebwohl-Lasher model, and move anisotropically along their orientation to an unoccupied nearest neighbour lattice site. An interplay of the activity, thermal fluctuations and density gives rise distinct states in the system...
August 1, 2017: Scientific Reports
Marcella M Gomez, Murat Arcak
Synthesizing spatial patterns with genetic networks is an ongoing challenge in synthetic biology. A successful demonstration of pattern formation would imply a better understanding of systems in the natural world and advance applications in synthetic biology. In developmental systems, transient patterning may suffice in order to imprint instructions for long-term development. In this paper we show that transient but persistent patterns can emerge from a realizable synthetic gene network based on a toggle switch...
August 1, 2017: ACS Synthetic Biology
Alexander A Green, Jongmin Kim, Duo Ma, Pamela A Silver, James J Collins, Peng Yin
Synthetic biology aims to develop engineering-driven approaches to the programming of cellular functions that could yield transformative technologies. Synthetic gene circuits that combine DNA, protein, and RNA components have demonstrated a range of functions such as bistability, oscillation, feedback, and logic capabilities. However, it remains challenging to scale up these circuits owing to the limited number of designable, orthogonal, high-performance parts, the empirical and often tedious composition rules, and the requirements for substantial resources for encoding and operation...
August 3, 2017: Nature
Casey O Diekman, Peter J Thomas, Christopher G Wilson
How sensory information influences the dynamics of rhythm generation varies across systems, and general principles for understanding this aspect of motor control are lacking. Determining the origin of respiratory rhythm generation is challenging because the mechanisms in a central circuit considered in isolation may be different than those in the intact organism. We analyze a closed-loop respiratory control model incorporating a central pattern generator (CPG), the Butera-Rinzel-Smith (BRS) model, together with lung mechanics, oxygen handling, and chemosensory components...
July 19, 2017: Journal of Neurophysiology
Eun-Jin Kim, Rainer Hollerbach
We propose a toy model for a cyclic order-disorder transition and introduce a geometric methodology to understand stochastic processes involved in transitions. Specifically, our model consists of a pair of forward and backward processes (FPs and BPs) for the emergence and disappearance of a structure in a stochastic environment. We calculate time-dependent probability density functions (PDFs) and the information length L, which is the total number of different states that a system undergoes during the transition...
June 2017: Physical Review. E
Jeong Oen Lee, Kwang-Wook Choi, Seon-Jin Choi, Min-Ho Kang, Min-Ho Seo, Il-Doo Kim, Kyoungsik Yu, Jun-Bo Yoon
We present a fast, energy-efficient nano-thermomechanical encoding scheme for digital information storage and retrieval. Digital encoding processes are conducted by the bistable electrothermal actuation of a scalable nanobridge device. The electrothermal energy is highly concentrated by enhanced electron/phonon scattering and heat insulation in a sub-100 nm metallic layer. The efficient conversion of electrothermal energy into mechanical strain allows digital switching and programming processes within 60 nanoseconds at 0...
July 14, 2017: ACS Nano
Debabrata Biswas, Tanmoy Banerjee, Jürgen Kurths
Birhythmicity occurs in many natural and artificial systems. In this paper, we propose a self-feedback scheme to control birhythmicity. To establish the efficacy and generality of the proposed control scheme, we apply it on three birhythmic oscillators from diverse fields of natural science, namely, an energy harvesting system, the p53-Mdm2 network for protein genesis (the OAK model), and a glycolysis model (modified Decroly-Goldbeter model). Using the harmonic decomposition technique and energy balance method, we derive the analytical conditions for the control of birhythmicity...
June 2017: Chaos
Wun-Sin Jhang, Shih-Chiang Lo, Chen-Chao Yeh, Che-Chi Shu
The cellular behaviors under the control of genetic circuits are subject to stochastic fluctuations, or noise. The stochasticity in gene regulation, far from a nuisance, has been gradually appreciated for its unusual function in cellular activities. In this work, with Chemical Master Equation (CME), we discovered that the addition of inhibitors altered the stochasticity of regulatory proteins. For a bistable system of a mutually inhibitory network, such a change of noise led to the migration of cells in the bimodal distribution...
June 30, 2017: Scientific Reports
James M Kunert-Graf, Eli Shlizerman, Andrew Walker, J Nathan Kutz
The neural dynamics of the nematode Caenorhabditis elegans are experimentally low-dimensional and may be understood as long-timescale transitions between multiple low-dimensional attractors. Previous modeling work has found that dynamic models of the worm's full neuronal network are capable of generating reasonable dynamic responses to certain inputs, even when all neurons are treated as identical save for their connectivity. This study investigates such a model of C. elegans neuronal dynamics, finding that a wide variety of multistable responses are generated in response to varied inputs...
2017: Frontiers in Computational Neuroscience
François-Xavier Coudert
Zeolitic Imidazolate Framework ZIF-8 displays flexibility of its framework by rotation of its imidazolate linker. This "swing effect" has been widely described in the literature, both experimental and theoretical, as a bistable system where the linker oscillates between two structures: "open window" and "closed window". By using quantum chemistry calculations and first principles molecular dynamics simulations, it is shown that the deformation upon adsorption is in fact continuous upon pore loading, with thermodynamics the reason behind stepped adsorption isotherms experimentally observed...
June 28, 2017: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
Andy Jenkins, Matthew Macauley
The lactose operon in Escherichia coli was the first known gene regulatory network, and it is frequently used as a prototype for new modeling paradigms. Historically, many of these modeling frameworks use differential equations. More recently, Stigler and Veliz-Cuba proposed a Boolean model that captures the bistability of the system and all of the biological steady states. In this paper, we model the well-known arabinose operon in E. coli with a Boolean network. This has several complex features not found in the lac operon, such as a protein that is both an activator and repressor, a DNA looping mechanism for gene repression, and the lack of inducer exclusion by glucose...
June 21, 2017: Bulletin of Mathematical Biology
Erik Bernitt, Hans-Günther Döbereiner, Nir S Gov, Arik Yochelis
During macropinocytosis, cells remodel their morphologies for the uptake of extracellular matter. This endocytotic mechanism relies on the collapse and closure of precursory structures, which are propagating actin-based, ring-shaped vertical undulations at the dorsal (top) cell membrane, a.k.a. circular dorsal ruffles (CDRs). As such, CDRs are essential to a range of vital and pathogenic processes alike. Here we show, based on both experimental data and theoretical analysis, that CDRs are propagating fronts of actin polymerization in a bistable system...
June 19, 2017: Nature Communications
Francesco Marino, Giovanni Giacomelli, Stephane Barland
We investigate the formation of localized domains through front pinning in a periodically forced, bistable semiconductor laser with long-delayed optoelectronic feedback. At difference with 1D spatially extended systems, the transition from the pinning to the propagation regime occurs via two separated bifurcations, each corresponding to the unpinning of one of the fronts surrounding the localized domain. The bifurcation splitting is systematically explored, unveiling the crucial role played by the forcing frequency...
May 2017: Physical Review. E
Gabriel A Zarza, Sergio E Mangioni, Javier Fernandez Acevedo, Roberto R Deza
We have devised an experiment whereby a bistable system is confined away from its deterministic attractors by means of multiplicative noise. Together with previous numerical results, our experimental results validate the hypothesis that the higher the slope of the noise's multiplicative factor, the more it shifts the stationary states.
May 2017: Physical Review. E
Yun Kang, Sourav Kumar Sasmal, Komi Messan
Foraging movements of predator play an important role in population dynamics of prey-predator systems, which have been considered as mechanisms that contribute to spatial self-organization of prey and predator. In nature, there are many examples of prey-predator interactions where prey is immobile while predator disperses between patches non-randomly through different factors such as stimuli following the encounter of a prey. In this work, we formulate a Rosenzweig-MacArthur prey-predator two patch model with mobility only in predator and the assumption that predators move towards patches with more concentrated prey-predator interactions...
August 1, 2017: Mathematical Biosciences and Engineering: MBE
Joung-Hun Lee, Marko Jusup, Yoh Iwasa
Maintaining human cooperation in the context of common-pool resource management is extremely important because otherwise we risk overuse and corruption. To analyse the interplay between economic and ecological factors leading to corruption, we couple the resource dynamics and the evolutionary dynamics of strategic decision making into a powerful analytical framework. The traits of this framework are: (i) an arbitrary number of harvesters share the responsibility to sustainably exploit a specific part of an ecosystem, (ii) harvesters face three strategic choices for exploiting the resource, (iii) a delegated enforcement system is available if called upon, (iv) enforcers are either honest or corrupt, and (v) the resource abundance reflects the choice of harvesting strategies...
June 7, 2017: Journal of Theoretical Biology
Mitchell Eithun, Anne Shiu
Phosphorylation, the enzyme-mediated addition of a phosphate group to a molecule, is a ubiquitous chemical mechanism in biology. Multisite phosphorylation, the addition of phosphate groups to multiple sites of a single molecule, may be distributive or processive. Distributive systems, which require an enzyme and substrate to bind several times in order to add multiple phosphate groups, can be bistable. Processive systems, in contrast, require only one binding to add all phosphate groups, and were recently shown to be globally stable...
September 2017: Mathematical Biosciences
Alexander T Topham, Rachel E Taylor, Dawei Yan, Eiji Nambara, Iain G Johnston, George W Bassel
Plants perceive and integrate information from the environment to time critical transitions in their life cycle. Some mechanisms underlying this quantitative signal processing have been described, whereas others await discovery. Seeds have evolved a mechanism to integrate environmental information by regulating the abundance of the antagonistically acting hormones abscisic acid (ABA) and gibberellin (GA). Here, we show that hormone metabolic interactions and their feedbacks are sufficient to create a bistable developmental fate switch in Arabidopsis seeds...
June 20, 2017: Proceedings of the National Academy of Sciences of the United States of America
Albert S Y Wong, Aleksandr A Pogodaev, Ilia N Vialshin, Britta Helwig, Wilhelm T S Huck
Living systems rely on complex networks of chemical reactions to control the concentrations of molecules in space and time. Despite the enormous complexity in biological networks, it is possible to identify network motifs that lead to functional outputs such as bistability or oscillations. One of the greatest challenges in chemistry is the creation of such functionality from chemical reactions. A key limitation is our lack of understanding of how molecular structure impacts on the dynamics of chemical reaction networks, preventing the design of networks that are robust (i...
June 21, 2017: Journal of the American Chemical Society
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