WorldWideScience

Sample records for couple tubulin dynamics

  1. Tubulin dynamics during the cytoplasmic cohesiveness cycle in artificially activated sea urchin eggs.

    Science.gov (United States)

    Coffe, G; Foucault, G; Raymond, M N; Pudles, J

    1983-12-01

    Sedimentation studies and [3H]colchicine-binding assays have demonstrated a relationship between the cytoplasmic cohesiveness cycles and the changes in tubulin organization in Paracentrotus lividus eggs activated by 2.5 mM procaine. The same amount of tubulin (20-25% of the total egg tubulin) is involved in these cyclic process and appears to undergo polymerization and depolymerization cycles. Electron microscopy studies reveal that the microtubules formed during these cytoplasmic cohesiveness cycles are under a particulate form which is sedimentable at low speed. Activation experiments carried out in the presence of cytochalasin B (CB) show that the increase in the cytoplasmic cohesiveness is highly reduced while tubulin polymerization and depolymerization cycles and pronuclear centration are not affected. Although tubulin or actin polymerization can be independently triggered in procaine-activated eggs, the increase in cytoplasmic cohesiveness requires the polymerization of both proteins. However, the cytoplasmic cohesiveness cycles appear to be regulated by tubulin polymerization and depolymerization cycles.

  2. Microtubule dynamics: Caps, catastrophes, and coupled hydrolysis

    DEFF Research Database (Denmark)

    Flyvbjerg, H.; Holy, T.E.; Leibler, S.

    1996-01-01

    individual tubulin dimers, an ignored. In this cap model, GTP hydrolysis is assumed to be stochastic and uncoupled to microtubule growth. Different rates of hydrolysis are assumed for GTP in the cap's interior and for GTP at its boundary with hydrolyzed parts of the microtubule. Expectation values...... and probability distributions relating to available experimental data are derived. Caps are found to be short and the total rate of hydrolysis at a microtubule end is found to be dynamically coupled to growth. The so-called catastrophe rate is a simple function of the microtubule growth rare and fits experimental...... of microtubule growth before dilution. The GTP content of microtubules is found and its rare of hydrolysis is determined under the circumstances created in an experiment designed to measure this GTP content. It is concluded that this experiment's failure to register any GTP content is consistent with the model...

  3. Mutations in Human Tubulin Proximal to the Kinesin-Binding Site Alter Dynamic Instability at Microtubule Plus- and Minus-Ends

    Energy Technology Data Exchange (ETDEWEB)

    Ti, Shih-Chieh; Pamula, Melissa C.; Howes, Stuart C.; Duellberg, Christian; Cade, Nicholas I.; Kleiner, Ralph E.; Forth, Scott; Surrey, Thomas; Nogales, Eva; Kapoor, Tarun M.

    2016-04-01

    The assembly of microtubule-based cellular structures depends on regulated tubulin polymerization and directional transport. In this research, we have purified and characterized tubulin heterodimers that have human β-tubulin isotype III (TUBB3), as well as heterodimers with one of two β-tubulin mutations (D417H or R262H). Both point mutations are proximal to the kinesin-binding site and have been linked to an ocular motility disorder in humans. Compared to wild-type, microtubules with these mutations have decreased catastrophe frequencies and increased average lifetimes of plus- and minus-end-stabilizing caps. Importantly, the D417H mutation does not alter microtubule lattice structure or Mal3 binding to growing filaments. Instead, this mutation reduces the affinity of tubulin for TOG domains and colchicine, suggesting that the distribution of tubulin heterodimer conformations is changed. Together, our findings reveal how residues on the surface of microtubules, distal from the GTP-hydrolysis site and inter-subunit contacts, can alter polymerization dynamics at the plus- and minus-ends of microtubules.

  4. Heterogeneous Dynamics of Coupled Vibrations

    NARCIS (Netherlands)

    Cringus, Dan; Jansen, Thomas I. C.; Pshenichnikov, Maxim S.; Schoenlein, RW; Corkum, P; DeSilvestri, S; Nelson, KA; Riedle, E

    2009-01-01

    Frequency-dependent dynamics of coupled stretch vibrations of a water molecule are revealed by 2D IR correlation spectroscopy. These are caused by non-Gaussian fluctuations of the environment around the individual OH stretch vibrations.

  5. The ADNP derived peptide, NAP modulates the tubulin pool: implication for neurotrophic and neuroprotective activities.

    Directory of Open Access Journals (Sweden)

    Saar Oz

    Full Text Available Microtubules (MTs, key cytoskeletal elements in living cells, are critical for axonal transport, synaptic transmission, and maintenance of neuronal morphology. NAP (NAPVSIPQ is a neuroprotective peptide derived from the essential activity-dependent neuroprotective protein (ADNP. In Alzheimer's disease models, NAP protects against tauopathy and cognitive decline. Here, we show that NAP treatment significantly affected the alpha tubulin tyrosination cycle in the neuronal differentiation model, rat pheochromocytoma (PC12 and in rat cortical astrocytes. The effect on tubulin tyrosination/detyrosination was coupled to increased MT network area (measured in PC12 cells, which is directly related to neurite outgrowth. Tubulin beta3, a marker for neurite outgrowth/neuronal differentiation significantly increased after NAP treatment. In rat cortical neurons, NAP doubled the area of dynamic MT invasion (Tyr-tubulin into the neuronal growth cone periphery. NAP was previously shown to protect against zinc-induced MT/neurite destruction and neuronal death, here, in PC12 cells, NAP treatment reversed zinc-decreased tau-tubulin-MT interaction and protected against death. NAP effects on the MT pool, coupled with increased tau engagement on compromised MTs imply an important role in neuronal plasticity, protecting against free tau accumulation leading to tauopathy. With tauopathy representing a major pathological hallmark in Alzheimer's disease and related disorders, the current findings provide a mechanistic basis for further development. NAP (davunetide is in phase 2/3 clinical trial in progressive supranuclear palsy, a disease presenting MT deficiency and tau pathology.

  6. The ADNP derived peptide, NAP modulates the tubulin pool: implication for neurotrophic and neuroprotective activities.

    Science.gov (United States)

    Oz, Saar; Ivashko-Pachima, Yanina; Gozes, Illana

    2012-01-01

    Microtubules (MTs), key cytoskeletal elements in living cells, are critical for axonal transport, synaptic transmission, and maintenance of neuronal morphology. NAP (NAPVSIPQ) is a neuroprotective peptide derived from the essential activity-dependent neuroprotective protein (ADNP). In Alzheimer's disease models, NAP protects against tauopathy and cognitive decline. Here, we show that NAP treatment significantly affected the alpha tubulin tyrosination cycle in the neuronal differentiation model, rat pheochromocytoma (PC12) and in rat cortical astrocytes. The effect on tubulin tyrosination/detyrosination was coupled to increased MT network area (measured in PC12 cells), which is directly related to neurite outgrowth. Tubulin beta3, a marker for neurite outgrowth/neuronal differentiation significantly increased after NAP treatment. In rat cortical neurons, NAP doubled the area of dynamic MT invasion (Tyr-tubulin) into the neuronal growth cone periphery. NAP was previously shown to protect against zinc-induced MT/neurite destruction and neuronal death, here, in PC12 cells, NAP treatment reversed zinc-decreased tau-tubulin-MT interaction and protected against death. NAP effects on the MT pool, coupled with increased tau engagement on compromised MTs imply an important role in neuronal plasticity, protecting against free tau accumulation leading to tauopathy. With tauopathy representing a major pathological hallmark in Alzheimer's disease and related disorders, the current findings provide a mechanistic basis for further development. NAP (davunetide) is in phase 2/3 clinical trial in progressive supranuclear palsy, a disease presenting MT deficiency and tau pathology.

  7. Microtubule dynamic instability: A new model with coupled GTP hydrolysis and multistep catastrophe

    Science.gov (United States)

    Bowne-Anderson, Hugo; Zanic, Marija; Kauer, Monika; Howard, Jonathon

    2013-01-01

    A key question in understanding microtubule dynamics is how GTP hydrolysis leads to catastrophe, the switch from slow growth to rapid shrinkage. We first provide a review of the experimental and modeling literature, and then present a new model of microtubule dynamics. We demonstrate that vectorial, random, and coupled hydrolysis mechanisms are not consistent with the dependence of catastrophe on tubulin concentration and show that, although single-protofilament models can explain many features of dynamics, they do not describe catastrophe as a multistep process. Finally, we present a new combined (coupled plus random hydrolysis) multiple-protofilament model that is a simple, analytically solvable generalization of a single-protofilament model. This model accounts for the observed lifetimes of growing microtubules, the delay to catastrophe following dilution and describes catastrophe as a multistep process. PMID:23532586

  8. Synchronization of coupled chaotic dynamics on networks

    Indian Academy of Sciences (India)

    www.ias.ac.in/article/fulltext/pram/064/03/0455-0464. Keywords. Dynamical systems; linear stability analysis; floating nodes. Abstract. We review some recent work on the synchronization of coupled dynamical systems on a variety of networks.

  9. Dynamics of coupled phantom and tachyon fields

    Energy Technology Data Exchange (ETDEWEB)

    Shahalam, M. [Zhejiang University of Technology, Institute for Advanced Physics and Mathematics, Hangzhou (China); Pathak, S.D.; Li, Shiyuan [Shandong University, School of Physics, Jinan (China); Myrzakulov, R. [Eurasian National University, Department of General and Theoretical Physics, Eurasian International Center for Theoretical Physics, Astana (Kazakhstan); Wang, Anzhong [Zhejiang University of Technology, Institute for Advanced Physics and Mathematics, Hangzhou (China); Baylor University, Department of Physics, GCAP-CASPER, Waco, TX (United States)

    2017-10-15

    In this paper, we apply the dynamical analysis to a coupled phantom field with scaling potential taking particular forms of the coupling (linear and combination of linear), and present phase space analysis. We investigate if there exists a late time accelerated scaling attractor that has the ratio of dark energy and dark matter densities of the order one. We observe that the scrutinized couplings cannot alleviate the coincidence problem, however, they acquire stable late time accelerated solutions. We also discuss a coupled tachyon field with inverse square potential assuming linear coupling. (orig.)

  10. Synchronization of coupled chaotic dynamics on networks

    Indian Academy of Sciences (India)

    We review some recent work on the synchronization of coupled dynamical systems on a variety of networks. When nodes show synchronized behaviour, two ... [5], congregations of synchronously flashing fireflies [6], and cricket that chirp in unison [7]. Coupled oscillators were first studied by Winfree [8] and Kuramoto [9].

  11. Joint Labour Supply Dynamics of Older Couples

    NARCIS (Netherlands)

    Michaud, P.C.

    2003-01-01

    This paper studies the labour force participation dynamics of older couples in the United States.Longitudinal data from the five available waves of the Health and Retirement Study (HRS) is used to investigate if the dynamics introduced by considering both spouses' behavior provide additional

  12. Dynamics of unidirectionally coupled bistable Henon maps

    International Nuclear Information System (INIS)

    Sausedo-Solorio, J.M.; Pisarchik, A.N.

    2011-01-01

    We study dynamics of two bistable Henon maps coupled in a master-slave configuration. In the case of coexistence of two periodic orbits, the slave map evolves into the master map state after transients, which duration determines synchronization time and obeys a -1/2 power law with respect to the coupling strength. This scaling law is almost independent of the map parameter. In the case of coexistence of chaotic and periodic attractors, very complex dynamics is observed, including the emergence of new attractors as the coupling strength is increased. The attractor of the master map always exists in the slave map independently of the coupling strength. For a high coupling strength, complete synchronization can be achieved only for the attractor similar to that of the master map. -- Highlights: → We study dynamics of two bistable Henon maps coupled in a master-slave configuration. → Synchronization time for periodic orbits obeys a -1/2 power law with respect to coupling. → For a high coupling strength, the slave map remains bistable. → Complete synchronization can be achieved only when both maps stay at the same attractor.

  13. Dynamics of vehicle-road coupled system

    CERN Document Server

    Yang, Shaopu; Li, Shaohua

    2015-01-01

    Vehicle dynamics and road dynamics are usually considered to be two largely independent subjects. In vehicle dynamics, road surface roughness is generally regarded as random excitation of the vehicle, while in road dynamics, the vehicle is generally regarded as a moving load acting on the pavement. This book suggests a new research concept to integrate the vehicle and the road system with the help of a tire model, and establishes a cross-subject research framework dubbed vehicle-pavement coupled system dynamics. In this context, the dynamics of the vehicle, road and the vehicle-road coupled system are investigated by means of theoretical analysis, numerical simulations and field tests. This book will be a valuable resource for university professors, graduate students and engineers majoring in automotive design, mechanical engineering, highway engineering and other related areas. Shaopu Yang is a professor and deputy president of Shijiazhuang Tiedao University, China; Liqun Chen is a professor at Shanghai Univ...

  14. Dynamics of Coupled Quantum Spin Chains

    International Nuclear Information System (INIS)

    Schulz, H.J.

    1996-01-01

    Static and dynamical properties of weakly coupled antiferromagnetic spin chains are treated using a mean-field approximation for the interchain coupling and exact results for the resulting effective one-dimensional problem. Results for staggered magnetization, Nacute eel temperature, and spin wave excitations are in agreement with experiments on KCuF 3 . The existence of a narrow longitudinal mode is predicted. The results are in agreement with general scaling arguments, contrary to spin wave theory. copyright 1996 The American Physical Society

  15. Coherent regimes of globally coupled dynamical systems

    DEFF Research Database (Denmark)

    de Monte, Silvia; D'ovidio, Francesco; Mosekilde, Erik

    2003-01-01

    This Letter presents a method by which the mean field dynamics of a population of dynamical systems with parameter diversity and global coupling can be described in terms of a few macroscopic degrees of freedom. The method applies to populations of any size and functional form in the region of co...... of oscillator death and the route to full locking are examined for chaotic oscillators with time scale mismatch....

  16. Dynamic Electromechanical Coupling of Piezoelectric Bending Actuators

    Directory of Open Access Journals (Sweden)

    Mostafa R. A. Nabawy

    2016-01-01

    Full Text Available Electromechanical coupling defines the ratio of electrical and mechanical energy exchanged during a flexure cycle of a piezoelectric actuator. This paper presents an analysis of the dynamic electromechanical coupling factor (dynamic EMCF for cantilever based piezoelectric actuators and provides for the first time explicit expressions for calculation of dynamic EMCF based on arrangement of passive and active layers, layer geometry, and active and passive materials selection. Three main cantilever layer configurations are considered: unimorph, dual layer bimorph and triple layer bimorph. The actuator is modeled using standard constitutive dynamic equations that relate deflection and charge to force and voltage. A mode shape formulation is used for the cantilever dynamics that allows the generalized mass to be the actual mass at the first resonant frequency, removing the need for numerical integration in the design process. Results are presented in the form of physical insight from the model structure and also numerical evaluations of the model to provide trends in dynamic EMCF with actuator design parameters. For given material properties of the active and passive layers and given system overall damping ratio, the triple layer bimorph topology is the best in terms of theoretically achievable dynamic EMCF, followed by the dual layer bimorph. For a damping ratio of 0.035, the dynamic EMCF for an example dual layer bimorph configuration is 9% better than for a unimorph configuration. For configurations with a passive layer, the ratio of thicknesses for the passive and active layers is the primary geometric design variable. Choice of passive layer stiffness (Young’s modulus relative to the stiffness of the material in the active layer is an important materials related design choice. For unimorph configurations, it is beneficial to use the highest stiffness possible passive material, whereas for triple layer bimorph configurations, the passive

  17. Dissimilar Dynamics of Coupled Water Vibrations

    NARCIS (Netherlands)

    Jansen, Thomas L. C.; Cringus, Dan; Pshenichnikov, Maxim S.

    2009-01-01

    Dissimilar dynamics of coupled stretch vibrations of a water molecule are revealed by two-dimensional, IR correlation spectroscopy. These are caused by essentially non-Gaussian fluctuations of the electric field exerted by the environment on the individual OH stretch vibrations. Non-Gaussian

  18. Affinity Purification and Characterization of Functional Tubulin from Cell Suspension Cultures of Arabidopsis and Tobacco1

    Science.gov (United States)

    Fujita, Satoshi; Uchimura, Seiichi; Noguchi, Masahiro; Demura, Taku

    2016-01-01

    Microtubules assemble into several distinct arrays that play important roles in cell division and cell morphogenesis. To decipher the mechanisms that regulate the dynamics and organization of this versatile cytoskeletal component, it is essential to establish in vitro assays that use functional tubulin. Although plant tubulin has been purified previously from protoplasts by reversible taxol-induced polymerization, a simple and efficient purification method has yet to be developed. Here, we used a Tumor Overexpressed Gene (TOG) column, in which the tubulin-binding domains of a yeast (Saccharomyces cerevisiae) TOG homolog are immobilized on resin, to isolate functional plant tubulin. We found that several hundred micrograms of pure tubulin can readily be purified from cell suspension cultures of tobacco (Nicotiana tabacum) and Arabidopsis (Arabidopsis thaliana). The tubulin purified by the TOG column showed high assembly competence, partly because of low levels of polymerization-inhibitory phosphorylation of α-tubulin. Compared with porcine brain tubulin, Arabidopsis tubulin is highly dynamic in vitro at both the plus and minus ends, exhibiting faster shrinkage rates and more frequent catastrophe events, and exhibits frequent spontaneous nucleation. Furthermore, our study shows that an internal histidine tag in α-tubulin can be used to prepare particular isotypes and specifically engineered versions of α-tubulin. In contrast to previous studies of plant tubulin, our mass spectrometry and immunoblot analyses failed to detect posttranslational modification of the isolated Arabidopsis tubulin or detected only low levels of posttranslational modification. This novel technology can be used to prepare assembly-competent, highly dynamic pure tubulin from plant cell cultures. PMID:26747285

  19. Tubulin, actin and heterotrimeric G proteins: coordination of signaling and structure.

    Science.gov (United States)

    Schappi, Jeffrey M; Krbanjevic, Aleksandar; Rasenick, Mark M

    2014-02-01

    G proteins mediate signals from membrane G protein coupled receptors to the cell interior, evoking significant regulation of cell physiology. The cytoskeleton contributes to cell morphology, motility, division, and transport functions. This review will discuss the interplay between heterotrimeric G protein signaling and elements of the cytoskeleton. Also described and discussed will be the interplay between tubulin and G proteins that results in atypical modulation of signaling pathways and cytoskeletal dynamics. This will be extended to describe how tubulin and G proteins act in concert to influence various aspects of cellular behavior. This article is part of a Special Issue entitled: Reciprocal influences between cell cytoskeleton and membrane channels, receptors and transporters.This article is part of a Special Issue entitled: Reciprocal influences between cell cytoskeleton and membrane channels, receptors and transporters. Guest Editor: Jean Claude Hervé. © 2013.

  20. Dietary antioxidant curcumin inhibits microtubule assembly through tubulin binding.

    Science.gov (United States)

    Gupta, Kamlesh K; Bharne, Shubhada S; Rathinasamy, Krishnan; Naik, Nishigandha R; Panda, Dulal

    2006-12-01

    Curcumin, a component of turmeric, has potent antitumor activity against several tumor types. However, its molecular target and mechanism of antiproliferative activity are not clear. Here, we identified curcumin as a novel antimicrotubule agent. We have examined the effects of curcumin on cellular microtubules and on reconstituted microtubules in vitro. Curcumin inhibited HeLa and MCF-7 cell proliferation in a concentration-dependent manner with IC(50) of 13.8 +/- 0.7 microm and 12 +/- 0.6 microm, respectively. At higher inhibitory concentrations (> 10 microm), curcumin induced significant depolymerization of interphase microtubules and mitotic spindle microtubules of HeLa and MCF-7 cells. However, at low inhibitory concentrations there were minimal effects on cellular microtubules. It disrupted microtubule assembly in vitro, reduced GTPase activity, and induced tubulin aggregation. Curcumin bound to tubulin at a single site with a dissociation constant of 2.4 +/- 0.4 microm and the binding of curcumin to tubulin induced conformational changes in tubulin. Colchicine and podophyllotoxin partly inhibited the binding of curcumin to tubulin, while vinblastine had no effect on the curcumin-tubulin interactions. The data together suggested that curcumin may inhibit cancer cells proliferation by perturbing microtubule assembly dynamics and may be used to develop efficacious curcumin analogues for cancer chemotherapy.

  1. Dynamical gauge coupling unification from moduli stabilization

    International Nuclear Information System (INIS)

    Choi, Kiwoon

    2006-01-01

    In D-brane models, different part of the 4-dimensional gauge group might originate from D-branes wrapping different cycles in the internal space, and then the standard model gauge couplings at the compactification scale are determined by different cycle-volume moduli. We point out that those cycle-volume moduli can naturally have universal vacuum expectation values up to small deviations suppressed by 1/8π 2 if they are stabilized by KKLT-type non-perturbative superpotential with properly chosen discrete parameters. This dynamical unification of gauge couplings is independent of the detailed form of the moduli Kahler potential, but relies crucially on the existence of low energy supersymmetry. If supersymmetry is broken by an uplifting brane as in KKLT compactification, again independently of the detailed form of the moduli Kahler potential, the moduli-mediated gaugino masses at the compactification scale are universal also, and are comparable to the anomaly-mediated gaugino masses. As a result, both the gauge coupling unification at high energy scale and the mirage mediation pattern of soft supersymmetry breaking masses are achieved naturally even when the different sets of the standard model gauge bosons originate from D-branes wrapping different cycles in the internal space

  2. Dynamics of coupled human-landscape systems

    Science.gov (United States)

    Werner, B. T.; McNamara, D. E.

    2007-11-01

    A preliminary dynamical analysis of landscapes and humans as hierarchical complex systems suggests that strong coupling between the two that spreads to become regionally or globally pervasive should be focused at multi-year to decadal time scales. At these scales, landscape dynamics is dominated by water, sediment and biological routing mediated by fluvial, oceanic, atmospheric processes and human dynamics is dominated by simplifying, profit-maximizing market forces and political action based on projection of economic effect. Also at these scales, landscapes impact humans through patterns of natural disasters and trends such as sea level rise; humans impact landscapes by the effect of economic activity and changes meant to mitigate natural disasters and longer term trends. Based on this analysis, human-landscape coupled systems can be modeled using heterogeneous agents employing prediction models to determine actions to represent the nonlinear behavior of economic and political systems and rule-based routing algorithms to represent landscape processes. A cellular model for the development of New Orleans illustrates this approach, with routing algorithms for river and hurricane-storm surge determining flood extent, five markets (home, labor, hotel, tourism and port services) connecting seven types of economic agents (home buyers/laborers, home developers, hotel owners/ employers, hotel developers, tourists, port services developer and port services owners/employers), building of levees or a river spillway by political agents and damage to homes, hotels or port services within cells determined by the passage or depth of flood waters. The model reproduces historical aspects of New Orleans economic development and levee construction and the filtering of frequent small-scale floods at the expense of large disasters.

  3. Activation of tubulin assembly into microtubules upon a series of repeated femtosecond laser impulses

    NARCIS (Netherlands)

    Tulub, AA; Stefanov, VE

    2004-01-01

    Tubulin, a globular protein, mostly distributed in nature in the dimeric alpha, beta form, can polymerize in vivo and in vitro into microtubules-longitudinal dynamic assemblies, involved in numerous cellular functions, including cell division and signaling. Tubulin polymerization starts upon binding

  4. Coupling geodynamic earthquake cycles and dynamic ruptures

    Science.gov (United States)

    van Zelst, Iris; van Dinther, Ylona; Gabriel, Alice-Agnes; Heuret, Arnauld

    2016-04-01

    Studying the seismicity in a subduction zone and its effects on tsunamis requires diverse modelling methods that span spatial and temporal scales. Hundreds of years are necessary to build the stresses and strengths on a fault, while consequent earthquake rupture propagation is determined by both these initial fault conditions and the feedback of seismic waves over periods of seconds up to minutes. This dynamic rupture displaces the sea floor, thereby causing tsunamis. The aim of the ASCETE (Advanced Simulations of Coupled Earthquake and Tsunami Events) project is to study all these aspects and their interactions. Here, we present preliminary results of the first aspects in this modelling chain: the coupling of a seismo-thermo-mechanical (STM) code to the dynamic rupture model SeisSol. STM models of earthquake cycles have the advantage of solving multiple earthquake events in a self-consistent manner concerning stress, strength and geometry. However, the drawback of these models is that they often lack in spatial or temporal resolution and do not include wave propagation. In contrast, dynamic rupture models solve for frictional failure coupled to seismic wave propagation. We use the software package SeisSol (www.seissol.org) based on an ADER-DG discretization allowing high-order accuracy in space and time as well as flexible tetrahedral meshing. However, such simulations require assumptions on the initial fault stresses and strengths and its geometry, which are hard to constrain due to the lack of near-field observations and the complexity of coseismic conditions. By adapting the geometry as well as the stress and strength properties of the self-consistently developing non-finite fault zones from the geodynamic models as initial conditions for the dynamic rupture models, the advantages of both methods are exploited and modelling results may be compared. Our results show that a dynamic rupture can be triggered spontaneously and that the propagating rupture is

  5. Dynamics of nonlinear oscillators with time-varying conjugate coupling

    Indian Academy of Sciences (India)

    We explore the dynamical consequences of time-varying conjugate coupling in a system of nonlinear oscillators. We analyze the behavior of coupled ... Conjugate coupling; time varying coupling. PACS Nos 05.45.Xt. 1. Introduction ..... MDS acknowledges the financial support from DST,. New Delhi. References. [1] L Glass ...

  6. Collective dynamics of delay-coupled limit cycle oscillators

    Indian Academy of Sciences (India)

    We present a brief overview of the effect of time-delayed coupling on the collective dynamics of such coupled systems. Simple model equations describing two oscillators with a discrete time-delayed coupling as well as those describing linear arrays of a large number of oscillators with time-delayed global or local couplings ...

  7. Statistical Dynamics of Pressure-Coupled Burgerlence

    Science.gov (United States)

    Fleischer, J.; Diamond, P. H.

    1999-11-01

    The probability distributions of shock structures in pressure-coupled burgerlence are discussed. A Fokker-Planck calculation of these distributions is compared and contrasted with a path integral approach. It is shown that the velocity structures lead to an asymmetric velocity PDF, as in ordinary Burgerlence. Pressure fluctuations, however, are symmetrically distributed. These symmetries are manifested in the generating function (action) of the dynamical system. The extremization of this action (instanton solution) suggests that the system maintains its characteristic directions in steady-state turbulence. Physically, this result implies equi-dissipation, not equipartition, of energy, supporting the earlier results from perturbation theory^1. ^1 J. Fleischer and P.H. Diamond, Phys. Rev. E 58, R2709 (1998).

  8. Photoaffinity studies of the tubulin-colchicine binding site

    International Nuclear Information System (INIS)

    Hahn, K.M.

    1987-01-01

    A variety of colchicine derivatives were synthesized and coupled with 3,3,3-trifluoro-2-diazapropionyl chloride (TFDP-Cl) to produce colchicine photoaffinity analogs for use in tubulin labelling studies. Photoaffinity analogs of allocolchicine and podophylotoxin were also made using the same photoreactive moiety. Several labels were found to be effective inhibitors of tubulin polymerization. The approximate tubulin binding constants of the labels, calculated from polymerization inhibition data, varied between 2.2 x 10 5 to 2.5 x 10 3 M -1 . The labels chosen for use in tubulin labelling experiments were (N-TFDP) deacetyl-thiocolchicine 1, (O-TFDP)thiocolchifoline 2, and (O-TFDP)-2-demethylthiocolchicine 3. Compound 1 was found to bind tubulin reversibly and to competitively inhibit colchicine binding. Methods for the incorporation of tritium and 14 C in these labels were developed. Conditions were found which caused labels to insert into solvent without photorearrangement of the colchicine skeleton. Catalytic base caused the α-diazo amide of 1 to rearrange to a triazole

  9. Dynamic nonlinear thermal optical effects in coupled ring resonators

    Directory of Open Access Journals (Sweden)

    Chenguang Huang

    2012-09-01

    Full Text Available We investigate the dynamic nonlinear thermal optical effects in a photonic system of two coupled ring resonators. A bus waveguide is used to couple light in and out of one of the coupled resonators. Based on the coupling from the bus to the resonator, the coupling between the resonators and the intrinsic loss of each individual resonator, the system transmission spectrum can be classified by three different categories: coupled-resonator-induced absorption, coupled-resonator-induced transparency and over coupled resonance splitting. Dynamic thermal optical effects due to linear absorption have been analyzed for each category as a function of the input power. The heat power in each resonator determines the thermal dynamics in this coupled resonator system. Multiple “shark fins” and power competition between resonators can be foreseen. Also, the nonlinear absorption induced thermal effects have been discussed.

  10. Optimization of mixed quantum-classical dynamics: Time-derivative coupling terms and selected couplings

    International Nuclear Information System (INIS)

    Pittner, Jiri; Lischka, Hans; Barbatti, Mario

    2009-01-01

    The usage of time-derivative non-adiabatic coupling terms and partially coupled time-dependent equations are investigated to accelerate non-adiabatic dynamics simulations at multireference configuration interaction (MRCI) level. The quality of the results and computational costs are compared against non-adiabatic benchmark dynamics calculations using non-adiabatic coupling vectors. In the comparison between the time-derivative couplings and coupling vectors, deviations in the adiabatic population of individual trajectories were observed in regions of rapid variation of the coupling terms. They, however, affected the average adiabatic population to only about 5%. For small multiconfiguration spaces, dynamics with time-derivative couplings are significantly faster than those with coupling vectors. This relation inverts for larger configuration spaces. The use of the partially coupled equations approach speeds up the simulations significantly while keeping the deviations in the population below few percent. Imidazole and the methaniminium cation are used as test examples

  11. Coupled dynamic systems and Le Chatelier's principle in noise control

    Science.gov (United States)

    Maidanik, G.; Becker, K. J.

    2004-05-01

    Investigation of coupling an externally driven dynamic system-a master dynamic system-to a passive one-an adjunct dynamic system-reveals that the response of the adjunct dynamic system affects the precoupled response of the master dynamic system. The responses, in the two dynamic systems when coupled, are estimated by the stored energies (Es) and (E0), respectively. Since the adjunct dynamic system, prior to coupling, was with zero (0) stored energy, E0s=0, the precoupled stored energy (E00) in the master dynamic system is expected to be reduced to (E0) when coupling is instituted; i.e., one expects E0dynamic system would result from the coupling. It is argued that the change in the disposition of the stored energies as just described may not be the only change. The coupling may influence the external input power into the master dynamic system which may interfere with the expected noise control. Indeed, the coupling may influence the external input power such that the expected beneficial noise control may not materialize. Examples of these kinds of noise control reversals are cited.

  12. Association of gamma-tubulin isoforms with tubulin dimers

    Czech Academy of Sciences Publication Activity Database

    Dráber, Pavel; Sulimenko, Vadym

    2003-01-01

    Roč. 27, č. 3 (2003), s. 197-198 ISSN 1065-6995. [The Plant Cytoskeleton: functional diversity and biotechnological implication. Kyjev, 23.09.2002-27.09.2002] R&D Projects: GA AV ČR IAA5052004; GA MŠk LN00A026 Institutional research plan: CEZ:AV0Z5052915 Keywords : association * gamma-tubulin * isoforms Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 1.092, year: 2003

  13. Research on Dynamic Coupled Characteristics of A Tracked Vehicle Gearbox

    Directory of Open Access Journals (Sweden)

    Hui Liu

    2011-12-01

    Full Text Available A tracked vehicle gearbox is divided into two subsystems-housing and gear train. Dynamic behaviors of the two subsystems are coupled practically. And the coupled characteristics describe the integrative dynamic behaviors of gearbox. This study proposes a coupled simulation model to investigate the interrelationship between dynamics of two subsystems. Multi-source excitations are numerically calculated to provide boundary conditions. The flexibility of transmission shafts and housing is mathematically described based on mode superposition. The coupled dynamic characteristics are analyzed with dynamics simulation computation. The flexibility of housing is one of the main causes to induce the fluctuation of dynamic responses of transmission shafts. The experimental results show that the proposed method is accurate through comparison of simulation results and test data.

  14. Tyrosine phosphorylation of plant tubulin

    Czech Academy of Sciences Publication Activity Database

    Blume, Y. B.; Yemets, A.; Sulimenko, Vadym; Sulimenko, Tetyana; Chan, J.; Lloyd, C.; Dráber, Pavel

    2008-01-01

    Roč. 229, č. 1 (2008), s. 143-150 ISSN 0032-0935 R&D Projects: GA MŠk LC545; GA ČR GA204/05/2375 Grant - others:EU(XE) INTAS 03-51-6459 Institutional research plan: CEZ:AV0Z50520514 Keywords : plant microtubules * tubulin * post-translation modifications Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 3.088, year: 2008

  15. Tubulin inhibitor identification by bioactive conformation alignment pharmacophore-guided virtual screening.

    Science.gov (United States)

    Nagarajan, Shanthi; Choi, Min Jeong; Cho, Yong Seo; Min, Sun-Joon; Keum, Gyochang; Kim, Soo Jin; Lee, Chang Sik; Pae, Ae Nim

    2015-11-01

    Microtubules are important cellular component that are critical for proper cellular function. Microtubules are synthesized by polymerization of αβ tubulin heterodimers called protofilaments. Microtubule dynamics facilitate proper cell division during mitosis. Disruption of microtubule dynamics by small-molecule agents inhibits mitosis, resulting in apoptotic cell death and preventing cell cycle progression. To identify a novel small molecule that binds the αβ tubulin interface to affect microtubule dynamics, we developed a bioactive conformation alignment pharmacophore (BCAP) model to screen tubulin inhibitors from a huge database. The application of BCAP model generated based on the known αβ-tubulin interface binders enabled us to identify several small-molecules that cause apoptosis in human promyelocytic leukemia (HL-60) cells. Virtual screening combined with an in vitro assay yielded 15 cytotoxic molecules. In particular, ethyl 2-(4-(5-methyl-3-nitro-1H-pyrazol-1-yl)butanamido)-4-phenylthiophene-3-carboxylate (H05) inhibited tubulin polymerization with an IC50 of 17.6 μm concentration. The virtual screening results suggest that the application of an unbiased BCAP pharmacophore greatly eliminates unlikely compounds from a huge database and maximizes screening success. From the limited compounds tested in the tubulin polymerization inhibitor (TPI) assay, compound H05 was discovered as a tubulin inhibitor. This compound requires further structure activity optimization to identify additional potent inhibitors from the same class of molecules. © 2015 John Wiley & Sons A/S.

  16. Inflationary dynamics of kinetically-coupled gauge fields

    DEFF Research Database (Denmark)

    Ferreira, Ricardo J. Z.; Ganc, Jonathan

    2015-01-01

    We investigate the inflationary dynamics of two kinetically-coupled massless U(1) gauge fields with time-varying kinetic-term coefficients. Ensuring that the system does not have strongly coupled regimes shrinks the parameter space. Also, we further restrict ourselves to systems that can be quant......We investigate the inflationary dynamics of two kinetically-coupled massless U(1) gauge fields with time-varying kinetic-term coefficients. Ensuring that the system does not have strongly coupled regimes shrinks the parameter space. Also, we further restrict ourselves to systems that can...

  17. Dynamics of microbubble oscillators with delay coupling

    Science.gov (United States)

    Heckman, C. R.; Sah, S. M.; Rand, R. H.

    2010-10-01

    We investigate the stability of the in-phase mode in a system of two delay-coupled bubble oscillators. The bubble oscillator model is based on a 1956 paper by Keller and Kolodner. Delay coupling is due to the time it takes for a signal to travel from one bubble to another through the liquid medium that surrounds them. Using techniques from the theory of differential-delay equations as well as perturbation theory, we show that the equilibrium of the in-phase mode can be made unstable if the delay is long enough and if the coupling strength is large enough, resulting in a Hopf bifurcation. We then employ Lindstedt's method to compute the amplitude of the limit cycle as a function of the time delay. This work is motivated by medical applications involving noninvasive localized drug delivery via microbubbles.

  18. Complex phase dynamics in coupled bursters

    DEFF Research Database (Denmark)

    Postnov, D.E.; Sosnovtseva, Olga; Malova, S.Y.

    2003-01-01

    The phenomenon of phase multistability in the synchronization of two coupled oscillatory systems typically arises when the systems individually display complex wave forms associated, for instance, with the presence of subharmonic components. Alternatively, phase multistability can be caused...... the number of spikes per train and the proximity of a neighboring equilibrium point can influence the formation of coexisting regimes....

  19. Fractional dynamical model for neurovascular coupling

    KAUST Repository

    Belkhatir, Zehor

    2014-08-01

    The neurovascular coupling is a key mechanism linking the neural activity to the hemodynamic behavior. Modeling of this coupling is very important to understand the brain function but it is at the same time very complex due to the complexity of the involved phenomena. Many studies have reported a time delay between the neural activity and the cerebral blood flow, which has been described by adding a delay parameter in some of the existing models. An alternative approach is proposed in this paper, where a fractional system is used to model the neurovascular coupling. Thanks to its nonlocal property, a fractional derivative is suitable for modeling the phenomena with delay. The proposed model is coupled with the first version of the well-known balloon model, which relates the cerebral blood flow to the Blood Oxygen Level Dependent (BOLD) signal measured using functional Magnetic Resonance Imaging (fMRI). Through some numerical simulations, the properties of the fractional model are explained and some preliminary comparisons to a real BOLD data set are provided. © 2014 IEEE.

  20. Dynamical behaviour of the coupled diffusion map lattice

    International Nuclear Information System (INIS)

    Wei Wang; Cerdeira, H.A.

    1993-10-01

    In this paper we report the dynamical study of a coupled diffusive map lattice with the coupling between the elements only through the bifurcation parameter of the mapping function. The diffusive process of the lattice from an initially random distribution state to a homogeneous one and the stable range of the diffusive homogeneous attractor are discussed. For various coupling strengths we find that there are several types of spatio-temporal structures. In addition, the evolution of the lattice into chaos is studied and a largest Lyapunov exponent is used to characterize the dynamical behaviour. (author). 22 refs, 9 figs

  1. Coupling functions: Universal insights into dynamical interaction mechanisms

    Science.gov (United States)

    Stankovski, Tomislav; Pereira, Tiago; McClintock, Peter V. E.; Stefanovska, Aneta

    2017-10-01

    The dynamical systems found in nature are rarely isolated. Instead they interact and influence each other. The coupling functions that connect them contain detailed information about the functional mechanisms underlying the interactions and prescribe the physical rule specifying how an interaction occurs. A coherent and comprehensive review is presented encompassing the rapid progress made recently in the analysis, understanding, and applications of coupling functions. The basic concepts and characteristics of coupling functions are presented through demonstrative examples of different domains, revealing the mechanisms and emphasizing their multivariate nature. The theory of coupling functions is discussed through gradually increasing complexity from strong and weak interactions to globally coupled systems and networks. A variety of methods that have been developed for the detection and reconstruction of coupling functions from measured data is described. These methods are based on different statistical techniques for dynamical inference. Stemming from physics, such methods are being applied in diverse areas of science and technology, including chemistry, biology, physiology, neuroscience, social sciences, mechanics, and secure communications. This breadth of application illustrates the universality of coupling functions for studying the interaction mechanisms of coupled dynamical systems.

  2. Interpreting Dynamically-Averaged Scalar Couplings in Proteins

    DEFF Research Database (Denmark)

    Lindorff-Larsen, Kresten; Best, Robert B.; Vendruscolo, Michele

    2005-01-01

    to be related to the torsion angles of the molecules. As the measured couplings are sensitive to thermal fluctuations, the parameters in the Karplus relationships are better derived from ensembles representing the distributions of dihedral angles present in solution, rather than from single conformations. We......The experimental determination of scalar three-bond coupling constants represents a powerful method to probe both the structure and dynamics of proteins. The detailed structural interpretation of such coupling constants is usually based on Karplus relationships, which allow the measured couplings...

  3. Entanglement dynamics of two coupled mechanical oscillators in modulated optomechanics

    Science.gov (United States)

    Chakraborty, Subhadeep; Sarma, Amarendra K.

    2018-02-01

    We study the entanglement dynamics of two coupled mechanical oscillators, within a modulated optomechanical system. We find that, depending on the strength of the mechanical coupling, one could observe either a stationary or a dynamical behavior of the mechanical entanglement, which is extremely robust against the oscillator temperature. Moreover, we have shown that this entanglement dynamics is strongly related to the stability of the normal modes. Taking mechanical damping effects into account, an analytical expression corresponding to the critical mechanical coupling strength, where the transition from stationary to dynamical entanglement occurs, is also reported. The proposed scheme is analyzed with experimentally realistic parameters, making it a promising means to realize macroscopic quantum entanglement within current state-of-the-art experimental setups.

  4. Seasonal dynamics of plankton communities coupled with ...

    African Journals Online (AJOL)

    In this study, we studied the influence of the physical-chemical and biological factors (bacterioplankton and phytoplankton abundances) for zooplankton dynamics in a Sidi Saâd reservoir in Centre of Tunisia. The samplings were carried out in spring, summer, autumn and winter (2005 to 2006) in the deepest station (surface ...

  5. Coupled intertwiner dynamics: A toy model for coupling matter to spin foam models

    Science.gov (United States)

    Steinhaus, Sebastian

    2015-09-01

    The universal coupling of matter and gravity is one of the most important features of general relativity. In quantum gravity, in particular spin foams, matter couplings have been defined in the past, yet the mutual dynamics, in particular if matter and gravity are strongly coupled, are hardly explored, which is related to the definition of both matter and gravitational degrees of freedom on the discretization. However, extracting these mutual dynamics is crucial in testing the viability of the spin foam approach and also establishing connections to other discrete approaches such as lattice gauge theories. Therefore, we introduce a simple two-dimensional toy model for Yang-Mills coupled to spin foams, namely an Ising model coupled to so-called intertwiner models defined for SU (2 )k. The two systems are coupled by choosing the Ising coupling constant to depend on spin labels of the background, as these are interpreted as the edge lengths of the discretization. We coarse grain this toy model via tensor network renormalization and uncover an interesting dynamics: the Ising phase transition temperature turns out to be sensitive to the background configurations and conversely, the Ising model can induce phase transitions in the background. Moreover, we observe a strong coupling of both systems if close to both phase transitions.

  6. Bistability in Coupled Oscillators Exhibiting Synchronized Dynamics

    Science.gov (United States)

    Olusola, O. I.; Vincent, U. E.; Njah, A. N.; Olowofela, J. A.

    2010-05-01

    We report some new results associated with the synchronization behavior of two coupled double-well Duffing oscillators (DDOs). Some sufficient algebraic criteria for global chaos synchronization of the drive and response DDOs via linear state error feedback control are obtained by means of Lyapunov stability theory. The synchronization is achieved through a bistable state in which a periodic attractor co-exists with a chaotic attractor. Using the linear perturbation analysis, the prevalence of attractors in parameter space and the associated bifurcations are examined. Subcritical and supercritical Hopf bifurcations and abundance of Arnold tongues — a signature of mode locking phenomenon are found.

  7. Driven Nonlinear Dynamics of Two Coupled Exchange-Only Qubits

    Directory of Open Access Journals (Sweden)

    Arijeet Pal

    2014-01-01

    Full Text Available Inspired by the creation of a fast exchange-only qubit [Medford et al., Phys. Rev. Lett. 111, 050501 (2013], we develop a theory describing the nonlinear dynamics of two such qubits that are capacitively coupled, when one of them is driven resonantly at a frequency equal to its level splitting. We include conditions of strong driving, where the Rabi frequency is a significant fraction of the level splitting, and we consider situations where the splitting for the second qubit may be the same as or different than the first. We demonstrate that coupling between qubits can be detected by reading the response of the second qubit, even when the coupling between them is only of about 1% of their level splittings, and we calculate entanglement between qubits. Patterns of nonlinear dynamics of coupled qubits and their entanglement are strongly dependent on the geometry of the system, and the specific mechanism of interqubit coupling deeply influences dynamics of both qubits. In particular, we describe the development of irregular dynamics in a two-qubit system, explore approaches for inhibiting it, and demonstrate the existence of an optimal range of coupling strength maintaining stability during the operational time.

  8. The kinesin–tubulin complex: considerations in structural and functional complexity

    Directory of Open Access Journals (Sweden)

    Olmsted ZT

    2015-02-01

    Full Text Available Zachary T Olmsted, Andrew G Colliver, Janet L Paluh State University of New York Polytechnic Institute, Colleges of Nanoscale Science and Engineering, College of Nanoscale Science, Nanobioscience Constellation, Albany, NY, USA Abstract: The ability of cells to respond to external cues by appropriately manipulating their internal environment requires a dynamic microtubule cytoskeleton that is facilitated by associated kinesin motor interactions. The evolutionary adaptations of kinesins and tubulins when merged generate a highly adaptable communication and infrastructure cellular network that is important to understanding specialized cell functions, human disease, and disease therapies. Here, we review the state of the field in the complex relationship of kinesin–tubulin interactions. We propose 12 mechanistic specializations of kinesins. In one category, referred to as sortability, we describe how kinesin interactions with tubulin isoforms, isotypes, or posttranslationally modified tubulins contribute to diverse cellular roles. Fourteen kinesin families have previously been described. Here, we illustrate the great depth of functional complexity that is possible in members within a single kinesin family by mechanistic specialization through discussion of the well-studied Kinesin-14 family. This includes new roles of Kinesin-14 in regulating supramolecular structures such as the microtubule-organizing center γ-tubulin ring complex of centrosomes. We next explore the value of an improved mechanistic understanding of kinesin–tubulin interactions in regard to human development, disease mechanisms, and improving treatments that target kinesin–tubulin complexes. The ability to combine the current kinesin nomenclature along with a more precisely defined kinesin and tubulin molecular toolbox is needed to support more detailed exploration of kinesin–tubulin interaction mechanisms including functional uniqueness, redundancy, or adaptations to new

  9. An Overview of Tubulin Inhibitors That Interact with the Colchicine Binding Site

    Science.gov (United States)

    Lu, Yan; Chen, Jianjun; Xiao, Min; Li, Wei

    2013-01-01

    Tubulin dynamics is a promising target for new chemotherapeutic agents. The colchicine binding site is one of the most important pockets for potential tubulin polymerization destabilizers. Colchicine binding site inhibitors (CBSI) exert their biological effects by inhibiting tubulin assembly and suppressing microtubule formation. A large number of molecules interacting with the colchicine binding site have been designed and synthesized with significant structural diversity. CBSIs have been modified as to chemical structure as well as pharmacokinetic properties, and tested in order to find a highly potent, low toxicity agent for treatment of cancers. CBSIs are believed to act by a common mechanism via binding to the colchicine site on tubulin. The present review is a synopsis of compounds that have been reported in the past decade that have provided an increase in our understanding of the actions of CBSIs. PMID:22814904

  10. Polyamine sharing between tubulin dimers favours microtubule nucleation and elongation via facilitated diffusion.

    Directory of Open Access Journals (Sweden)

    Alain Mechulam

    2009-01-01

    Full Text Available We suggest for the first time that the action of multivalent cations on microtubule dynamics can result from facilitated diffusion of GTP-tubulin to the microtubule ends. Facilitated diffusion can promote microtubule assembly, because, upon encountering a growing nucleus or the microtubule wall, random GTP-tubulin sliding on their surfaces will increase the probability of association to the target sites (nucleation sites or MT ends. This is an original explanation for understanding the apparent discrepancy between the high rate of microtubule elongation and the low rate of tubulin association at the microtubule ends in the viscous cytoplasm. The mechanism of facilitated diffusion requires an attraction force between two tubulins, which can result from the sharing of multivalent counterions. Natural polyamines (putrescine, spermidine, and spermine are present in all living cells and are potent agents to trigger tubulin self-attraction. By using an analytical model, we analyze the implication of facilitated diffusion mediated by polyamines on nucleation and elongation of microtubules. In vitro experiments using pure tubulin indicate that the promotion of microtubule assembly by polyamines is typical of facilitated diffusion. The results presented here show that polyamines can be of particular importance for the regulation of the microtubule network in vivo and provide the basis for further investigations into the effects of facilitated diffusion on cytoskeleton dynamics.

  11. Tinamit: Making coupled system dynamics models accessible to stakeholders

    Science.gov (United States)

    Malard, Julien; Inam Baig, Azhar; Rojas Díaz, Marcela; Hassanzadeh, Elmira; Adamowski, Jan; Tuy, Héctor; Melgar-Quiñonez, Hugo

    2017-04-01

    Model coupling is increasingly used as a method of combining the best of two models when representing socio-environmental systems, though barriers to successful model adoption by stakeholders are particularly present with the use of coupled models, due to their high complexity and typically low implementation flexibility. Coupled system dynamics - physically-based modelling is a promising method to improve stakeholder participation in environmental modelling while retaining a high level of complexity for physical process representation, as the system dynamics components are readily understandable and can be built by stakeholders themselves. However, this method is not without limitations in practice, including 1) inflexible and complicated coupling methods, 2) difficult model maintenance after the end of the project, and 3) a wide variety of end-user cultures and languages. We have developed the open-source Python-language software tool Tinamit to overcome some of these limitations to the adoption of stakeholder-based coupled system dynamics - physically-based modelling. The software is unique in 1) its inclusion of both a graphical user interface (GUI) and a library of available commands (API) that allow users with little or no coding abilities to rapidly, effectively, and flexibly couple models, 2) its multilingual support for the GUI, allowing users to couple models in their preferred language (and to add new languages as necessary for their community work), and 3) its modular structure allowing for very easy model coupling and modification without the direct use of code, and to which programming-savvy users can easily add support for new types of physically-based models. We discuss how the use of Tinamit for model coupling can greatly increase the accessibility of coupled models to stakeholders, using an example of a stakeholder-built system dynamics model of soil salinity issues in Pakistan coupled with the physically-based soil salinity and water flow model

  12. Nuclear Hybrid Energy System Modeling: RELAP5 Dynamic Coupling Capabilities

    Energy Technology Data Exchange (ETDEWEB)

    Piyush Sabharwall; Nolan Anderson; Haihua Zhao; Shannon Bragg-Sitton; George Mesina

    2012-09-01

    The nuclear hybrid energy systems (NHES) research team is currently developing a dynamic simulation of an integrated hybrid energy system. A detailed simulation of proposed NHES architectures will allow initial computational demonstration of a tightly coupled NHES to identify key reactor subsystem requirements, identify candidate reactor technologies for a hybrid system, and identify key challenges to operation of the coupled system. This work will provide a baseline for later coupling of design-specific reactor models through industry collaboration. The modeling capability addressed in this report focuses on the reactor subsystem simulation.

  13. Dynamics of order parameters for globally coupled oscillators

    DEFF Research Database (Denmark)

    De Monte, Silvia; D'ovidio, Francesco

    2002-01-01

    The equation of motion for the centroid of globally coupled oscillators with natural frequency mismatch is obtained through a series expansion in order parameters, valid for any population size. In the case of strong coupling and narrow-frequency distribution the first-order expansion (correspond......The equation of motion for the centroid of globally coupled oscillators with natural frequency mismatch is obtained through a series expansion in order parameters, valid for any population size. In the case of strong coupling and narrow-frequency distribution the first-order expansion...... (corresponding to a system where the centroid is coupled to a second macroscopic variable), predicts transient and asymptotic properties of the dynamics of the centroid. Phase transitions appear as macroscopic bifurcations. Collective properties arising in the transient, and particularly critical perturbations...

  14. 3D-modeling of carboxyl-terminal phosphorylation of plant αβ-tubulin and its role in kinesin-8/microtubule interaction.

    Science.gov (United States)

    Demchuk, Oleh M; Karpov, Pavel A; Blume, Yaroslav B

    2017-07-07

    The results of computer modeling of plant kinesin-8/αβ-tubulin complexes with such αβ-tubulins' modified amino acid residues as phosphorylated Tyr262 and Tyr107 are reported in this paper. The molecular dynamics of these modified complexes in comparison with the dynamics of non-modified ones suggests that the phosphorylation of both α- and β-tubulins reveals stabilizing effect on the protein structure around the modified residue. It was found also that the phosphorylation of Tyr107 in β-tubulin molecule favors to more advantageous kinesin-8 binding with the phosphorylated microtubule surface in terms of energy. © 2017 International Federation for Cell Biology.

  15. Multiscality in the Dynamics of Coupled Chaotic Systems

    DEFF Research Database (Denmark)

    Pavlov, A.N.; Sosnovtseva, Olga; Ziganshin, A.R.

    2002-01-01

    We investigate the scaling features of complex motions in systems of two coupled chaotic oscillators by means of the wavelet-transform modulus maxima method and the detrended fluctuation analysis. We show that the transition from asynchronous to synchronous dynamics typically reduces the degree o...

  16. Dynamical hysteresis and spatial synchronization in coupled non ...

    Indian Academy of Sciences (India)

    behavior of complex biological systems, e.g. seizures in the epileptic brain can be viewed as transitions between different dynamical phases caused by time dependence in the brain's internal coupling. Keywords. Hysteresis; multistability; spatial synchronization; spatio-temporal chaos. PACS Nos 05.45.Xt; 05.45.tp; 05.45.

  17. Exponential Synchronization of Uncertain Complex Dynamical Networks with Delay Coupling

    International Nuclear Information System (INIS)

    Wang Lifu; Kong Zhi; Jing Yuanwei

    2010-01-01

    This paper studies the global exponential synchronization of uncertain complex delayed dynamical networks. The network model considered is general dynamical delay networks with unknown network structure and unknown coupling functions but bounded. Novel delay-dependent linear controllers are designed via the Lyapunov stability theory. Especially, it is shown that the controlled networks are globally exponentially synchronized with a given convergence rate. An example of typical dynamical network of this class, having the Lorenz system at each node, has been used to demonstrate and verify the novel design proposed. And, the numerical simulation results show the effectiveness of proposed synchronization approaches. (general)

  18. Flexible dynamics of two quorum-sensing coupled repressilators

    Science.gov (United States)

    Hellen, Edward H.; Volkov, Evgeny

    2017-02-01

    Genetic oscillators play important roles in cell life regulation. The regulatory efficiency usually depends strongly on the emergence of stable collective dynamic modes, which requires designing the interactions between genetic networks. We investigate the dynamics of two identical synthetic genetic repressilators coupled by an additional plasmid which implements quorum sensing (QS) in each network thereby supporting global coupling. In a basic genetic ring oscillator network in which three genes inhibit each other in unidirectional manner, QS stimulates the transcriptional activity of chosen genes providing for competition between inhibitory and stimulatory activities localized in those genes. The "promoter strength", the Hill cooperativity coefficient of transcription repression, and the coupling strength, i.e., parameters controlling the basic rates of genetic reactions, were chosen for extensive bifurcation analysis. The results are presented as a map of dynamic regimes. We found that the remarkable multistability of the antiphase limit cycle and stable homogeneous and inhomogeneous steady states exists over broad ranges of control parameters. We studied the antiphase limit cycle stability and the evolution of irregular oscillatory regimes in the parameter areas where the antiphase cycle loses stability. In these regions we observed developing complex oscillations, collective chaos, and multistability between regular limit cycles and complex oscillations over uncommonly large intervals of coupling strength. QS coupling stimulates the appearance of intrachaotic periodic windows with spatially symmetric and asymmetric partial limit cycles which, in turn, change the type of chaos from a simple antiphase character into chaos composed of pieces of the trajectories having alternating polarity. The very rich dynamics discovered in the system of two identical simple ring oscillators may serve as a possible background for biological phenotypic diversification, as well

  19. Quench dynamics of two coupled zig-zag ion chains

    International Nuclear Information System (INIS)

    Klumpp, Andrea; Liebchen, Benno; Schmelcher, Peter

    2016-01-01

    We explore the non-equilibrium dynamics of two coupled zig-zag chains of trapped ions in a double well potential. Following a quench of the potential barrier between both wells, the induced coupling between both chains due to the long-range interaction of the ions leads to the complete loss of order in the radial direction. The resulting dynamics is however not exclusively irregular but leads to phases of motion during which various ordered structures appear with ions arranged in arcs, lines and crosses. We quantify the emerging order by introducing a suitable measure and complement our analysis of the ion dynamics using a normal mode analysis showing a decisive population transfer between only a few distinguished modes. - Highlights: • Novel dynamical phenomenology of two coupled zig-zag ion chains following a trap quench is explored. • Transient ordered ion configurations are unraveled in non-equilibrium dynamics dominated by irregular behavior. • A measure for the diagnosis of this transient order is introduced and applied. • Energy transfer between a few eigen modes is identified as the key mechanism for the occurrence of the ordered configurations.

  20. Dynamic signaling cascades: reversible covalent reaction-coupled molecular switches.

    Science.gov (United States)

    Ren, Yulong; You, Lei

    2015-11-11

    The research of systems chemistry exploring complex mixtures of interacting synthetic molecules has been burgeoning recently. Herein we demonstrate for the first time the coupling of molecular switches with a dynamic covalent reaction (DCR) and the modulation of created chemical cascades with a variety of inputs, thus closely mimicking a biological signaling system. A novel Michael type DCR of 10-methylacridinium perchlorate and monothiols exhibiting excellent regioselectivity and tunable affinity was discovered. A delicate balance between the unique reactivity of the reactant and the stability of the adduct leads to the generation of a strong acid in a thermodynamically controlled system. The dynamic cascade was next created via coupling of the DCR and a protonation-induced configurational switch (E/Z isomerization) through a proton relay. Detailed examination of the interdependence of the equilibrium enabled us to rationally optimize the cascade and also shed light on the possible intermediate of the switching process. Furthermore, relative independence of the coupled reactions was verified by the identification of stimuli that are able to facilitate one reaction but suppress the other. To further enhance systematic complexity, a second DCR of electrophilic aldehydes and thiols was employed for the reversible inhibition of the binary system, thus achieving the interplay of multiple equilibria. Finally, a fluorescence switch was turned on through coupling with the DCR, showcasing the versatility of our strategy. The results described herein should pave the way for the exploitation of multifunctional dynamic covalent cascades.

  1. A Coupling Tool for Parallel Molecular Dynamics-Continuum Simulations

    KAUST Repository

    Neumann, Philipp

    2012-06-01

    We present a tool for coupling Molecular Dynamics and continuum solvers. It is written in C++ and is meant to support the developers of hybrid molecular - continuum simulations in terms of both realisation of the respective coupling algorithm as well as parallel execution of the hybrid simulation. We describe the implementational concept of the tool and its parallel extensions. We particularly focus on the parallel execution of particle insertions into dense molecular systems and propose a respective parallel algorithm. Our implementations are validated for serial and parallel setups in two and three dimensions. © 2012 IEEE.

  2. The dynamics of two linearly coupled Goodwin oscillators

    Science.gov (United States)

    Antonova, A. O.; Reznik, S. N.; Todorov, M. D.

    2017-10-01

    In this paper the Puu model of the interaction of Goodwin's business cycles for two regions is reconsidered. We investigated the effect of the accelerator coefficients and the Hicksian 'ceiling' and 'floor' parameters on the time dynamics of incomes for different values of marginal propensity to import. The cases when the periods of isolated Goodwin's cycles are close, and when they differ approximately twice are considered. By perturbation theory we obtained the formulas for slowly varying amplitudes and phase difference of weakly nonlinear coupled Goodwin oscillations. The coupled oscillations of two Goodwin's cycles with piecewise linear accelerators with only 'floor' are considered.

  3. Network synchronization of time-delayed coupled nonlinear systems using predictor-based diffusive dynamic couplings.

    Science.gov (United States)

    Murguia, C; Fey, Rob H B; Nijmeijer, H

    2015-02-01

    We study the problem of controlled network synchronization of coupled semipassive systems in the case when the outputs (the coupling variables) and the inputs are subject to constant time-delay (as it is often the case in a networked context). Predictor-based dynamic output feedback controllers are proposed to interconnect the systems on a given network. Using Lyapunov-Krasovskii functional and the notion of semipassivity, we prove that under some mild assumptions, the solutions of the interconnected systems are globally ultimately bounded. Sufficient conditions on the systems to be interconnected, on the network topology, on the coupling dynamics, and on the time-delays that guarantee global state synchronization are derived. A local analysis is provided in which we compare the performance of our predictor-based control scheme against the existing static diffusive couplings available in the literature. We show (locally) that the time-delay that can be induced to the network may be increased by including the predictors in the loop. The results are illustrated by computer simulations of coupled Hindmarsh-Rose neurons.

  4. Network synchronization of time-delayed coupled nonlinear systems using predictor-based diffusive dynamic couplings

    Science.gov (United States)

    Murguia, C.; Fey, Rob H. B.; Nijmeijer, H.

    2015-02-01

    We study the problem of controlled network synchronization of coupled semipassive systems in the case when the outputs (the coupling variables) and the inputs are subject to constant time-delay (as it is often the case in a networked context). Predictor-based dynamic output feedback controllers are proposed to interconnect the systems on a given network. Using Lyapunov-Krasovskii functional and the notion of semipassivity, we prove that under some mild assumptions, the solutions of the interconnected systems are globally ultimately bounded. Sufficient conditions on the systems to be interconnected, on the network topology, on the coupling dynamics, and on the time-delays that guarantee global state synchronization are derived. A local analysis is provided in which we compare the performance of our predictor-based control scheme against the existing static diffusive couplings available in the literature. We show (locally) that the time-delay that can be induced to the network may be increased by including the predictors in the loop. The results are illustrated by computer simulations of coupled Hindmarsh-Rose neurons.

  5. Exploring the binding sites and binding mechanism for hydrotrope encapsulated griseofulvin drug on γ-tubulin protein.

    Science.gov (United States)

    Das, Shubhadip; Paul, Sandip

    2018-01-01

    The protein γ-tubulin plays an important role in centrosomal clustering and this makes it an attractive therapeutic target for treating cancers. Griseofulvin, an antifungal drug, has recently been used to inhibit proliferation of various types of cancer cells. It can also affect the microtubule dynamics by targeting the γ-tubulin protein. So far, the binding pockets of γ-tubulin protein are not properly identified and the exact mechanism by which the drug binds to it is an area of intense speculation and research. The aim of the present study is to investigate the binding mechanism and binding affinity of griseofulvin on γ-tubulin protein using classical molecular dynamics simulations. Since the drug griseofulvin is sparingly soluble in water, here we also present a promising approach for formulating and achieving delivery of hydrophobic griseofulvin drug via hydrotrope sodium cumene sulfonate (SCS) cluster. We observe that the binding pockets of γ-tubulin protein are mainly formed by the H8, H9 helices and S7, S8, S14 strands and the hydrophobic interactions between the drug and γ-tubulin protein drive the binding process. The release of the drug griseofulvin from the SCS cluster is confirmed by the coordination number analysis. We also find hydrotrope-induced alteration of the binding sites of γ-tubulin protein and the weakening of the drug-protein interactions.

  6. Exploring the binding sites and binding mechanism for hydrotrope encapsulated griseofulvin drug on γ-tubulin protein.

    Directory of Open Access Journals (Sweden)

    Shubhadip Das

    Full Text Available The protein γ-tubulin plays an important role in centrosomal clustering and this makes it an attractive therapeutic target for treating cancers. Griseofulvin, an antifungal drug, has recently been used to inhibit proliferation of various types of cancer cells. It can also affect the microtubule dynamics by targeting the γ-tubulin protein. So far, the binding pockets of γ-tubulin protein are not properly identified and the exact mechanism by which the drug binds to it is an area of intense speculation and research. The aim of the present study is to investigate the binding mechanism and binding affinity of griseofulvin on γ-tubulin protein using classical molecular dynamics simulations. Since the drug griseofulvin is sparingly soluble in water, here we also present a promising approach for formulating and achieving delivery of hydrophobic griseofulvin drug via hydrotrope sodium cumene sulfonate (SCS cluster. We observe that the binding pockets of γ-tubulin protein are mainly formed by the H8, H9 helices and S7, S8, S14 strands and the hydrophobic interactions between the drug and γ-tubulin protein drive the binding process. The release of the drug griseofulvin from the SCS cluster is confirmed by the coordination number analysis. We also find hydrotrope-induced alteration of the binding sites of γ-tubulin protein and the weakening of the drug-protein interactions.

  7. Coupled disease-behavior dynamics on complex networks: A review

    Science.gov (United States)

    Wang, Zhen; Andrews, Michael A.; Wu, Zhi-Xi; Wang, Lin; Bauch, Chris T.

    2015-12-01

    It is increasingly recognized that a key component of successful infection control efforts is understanding the complex, two-way interaction between disease dynamics and human behavioral and social dynamics. Human behavior such as contact precautions and social distancing clearly influence disease prevalence, but disease prevalence can in turn alter human behavior, forming a coupled, nonlinear system. Moreover, in many cases, the spatial structure of the population cannot be ignored, such that social and behavioral processes and/or transmission of infection must be represented with complex networks. Research on studying coupled disease-behavior dynamics in complex networks in particular is growing rapidly, and frequently makes use of analysis methods and concepts from statistical physics. Here, we review some of the growing literature in this area. We contrast network-based approaches to homogeneous-mixing approaches, point out how their predictions differ, and describe the rich and often surprising behavior of disease-behavior dynamics on complex networks, and compare them to processes in statistical physics. We discuss how these models can capture the dynamics that characterize many real-world scenarios, thereby suggesting ways that policy makers can better design effective prevention strategies. We also describe the growing sources of digital data that are facilitating research in this area. Finally, we suggest pitfalls which might be faced by researchers in the field, and we suggest several ways in which the field could move forward in the coming years.

  8. Coupled disease-behavior dynamics on complex networks: A review.

    Science.gov (United States)

    Wang, Zhen; Andrews, Michael A; Wu, Zhi-Xi; Wang, Lin; Bauch, Chris T

    2015-12-01

    It is increasingly recognized that a key component of successful infection control efforts is understanding the complex, two-way interaction between disease dynamics and human behavioral and social dynamics. Human behavior such as contact precautions and social distancing clearly influence disease prevalence, but disease prevalence can in turn alter human behavior, forming a coupled, nonlinear system. Moreover, in many cases, the spatial structure of the population cannot be ignored, such that social and behavioral processes and/or transmission of infection must be represented with complex networks. Research on studying coupled disease-behavior dynamics in complex networks in particular is growing rapidly, and frequently makes use of analysis methods and concepts from statistical physics. Here, we review some of the growing literature in this area. We contrast network-based approaches to homogeneous-mixing approaches, point out how their predictions differ, and describe the rich and often surprising behavior of disease-behavior dynamics on complex networks, and compare them to processes in statistical physics. We discuss how these models can capture the dynamics that characterize many real-world scenarios, thereby suggesting ways that policy makers can better design effective prevention strategies. We also describe the growing sources of digital data that are facilitating research in this area. Finally, we suggest pitfalls which might be faced by researchers in the field, and we suggest several ways in which the field could move forward in the coming years. Copyright © 2015 Elsevier B.V. All rights reserved.

  9. Collective Rabi dynamics of electromagnetically coupled quantum-dot ensembles

    Science.gov (United States)

    Glosser, Connor; Shanker, B.; Piermarocchi, Carlo

    2017-09-01

    Rabi oscillations typify the inherent nonlinearity of optical excitations in quantum dots. Using an integral kernel formulation to solve the three-dimensional Maxwell-Bloch equations in ensembles of up to 104 quantum dots, we observe features in Rabi oscillations due to the interplay of nonlinearity, nonequilibrium excitation, and electromagnetic coupling between the dots. This approach allows us to observe the dynamics of each dot in the ensemble without resorting to spatial averages. Our simulations predict synchronized multiplets of dots that exchange energy, dots that dynamically couple to screen the effect of incident external radiation, localization of the polarization due to randomness and interactions, as well as wavelength-scale regions of enhanced and suppressed polarization.

  10. A dynamic allocation mechanism of delivering capacity in coupled networks

    International Nuclear Information System (INIS)

    Du, Wen-Bo; Zhou, Xing-Lian; Zhu, Yan-Bo; Zheng, Zheng

    2015-01-01

    Traffic process is ubiquitous in many critical infrastructures. In this paper, we introduce a mechanism to dynamically allocate the delivering capacity into the data-packet traffic model on the coupled Internet autonomous-system-level network of South Korea and Japan, and focus on its effect on the transport efficiency. In this mechanism, the total delivering capacity is constant and the lowest-load node will give one unit delivering capacity to the highest-load node at each time step. It is found that the delivering capacity of busy nodes and non-busy nodes can be well balanced and the effective betweenness of busy nodes with interconnections is significantly reduced. Consequently, the transport efficiency such as average traveling time and packet arrival rate is remarkably improved. Our work may shed some light on the traffic dynamics in coupled networks.

  11. Forced versus coupled dynamics in Earth system modelling and prediction

    Directory of Open Access Journals (Sweden)

    B. Knopf

    2005-01-01

    Full Text Available We compare coupled nonlinear climate models and their simplified forced counterparts with respect to predictability and phase space topology. Various types of uncertainty plague climate change simulation, which is, in turn, a crucial element of Earth System modelling. Since the currently preferred strategy for simulating the climate system, or the Earth System at large, is the coupling of sub-system modules (representing, e.g. atmosphere, oceans, global vegetation, this paper explicitly addresses the errors and indeterminacies generated by the coupling procedure. The focus is on a comparison of forced dynamics as opposed to fully, i.e. intrinsically, coupled dynamics. The former represents a particular type of simulation, where the time behaviour of one complex systems component is prescribed by data or some other external information source. Such a simplifying technique is often employed in Earth System models in order to save computing resources, in particular when massive model inter-comparisons need to be carried out. Our contribution to the debate is based on the investigation of two representative model examples, namely (i a low-dimensional coupled atmosphere-ocean simulator, and (ii a replica-like simulator embracing corresponding components.Whereas in general the forced version (ii is able to mimic its fully coupled counterpart (i, we show in this paper that for a considerable fraction of parameter- and state-space, the two approaches qualitatively differ. Here we take up a phenomenon concerning the predictability of coupled versus forced models that was reported earlier in this journal: the observation that the time series of the forced version display artificial predictive skill. We present an explanation in terms of nonlinear dynamical theory. In particular we observe an intermittent version of artificial predictive skill, which we call on-off synchronization, and trace it back to the appearance of unstable periodic orbits. We also

  12. Relationship dynamics around depression in gay and lesbian couples.

    Science.gov (United States)

    Thomeer, Mieke Beth; Reczek, Corinne; Umberson, Debra

    2015-12-01

    Research on intimate relationship dynamics around depression has primarily focused on heterosexual couples. This body of work shows that wives are more likely than husbands to offer support to a depressed spouse. Moreover, when wives are depressed, they are more likely than husbands to try and shield their spouse from the stress of their own depression. Yet, previous research has not examined depression and relationship dynamics in gay and lesbian couples. We analyze in-depth interviews with 26 gay and lesbian couples (N = 52 individuals) in which one or both partners reported depression. We find evidence that dominant gender scripts are both upheld and challenged within gay and lesbian couples, providing important insight into how gender operates in relation to depression within same-sex contexts. Our results indicate that most gay and lesbian partners offer support to a depressed partner, yet lesbian couples tend to follow a unique pattern in that they provide support both as the non-depressed and depressed partner. Support around depression is sometimes viewed as improving the relationship, but if the support is intensive or rejected, it is often viewed as contributing to relationship strain. Support is also sometimes withdrawn by the non-depressed partner because of caregiver exhaustion or the perception that the support is unhelpful. This study points to the importance of considering depression within gay and lesbian relational contexts, revealing new ways support sustains and strains intimate partnerships. We emphasize the usefulness of deploying couple-level approaches to better understand depression in sexual minority populations. Copyright © 2015 Elsevier Ltd. All rights reserved.

  13. Integrable Problems of the Dynamics of Coupled Rigid Bodies

    Science.gov (United States)

    Bogoyavlenskiĭ, O. I.

    1993-06-01

    Several classical problems of dynamics are shown to be integrable for the special systems of coupled rigid bodies introduced in this paper and called Ck-central configurations. It is proved that the dynamics of an arbitrary Ck-central configuration in the Newtonian gravitational field with an arbitrary quadratic potential is integrable in the Liouville sense and in theta-functions of Riemann surfaces. A hidden symmetry of the inertial dynamics of these configurations is found, and reductions of the corresponding Lagrange equations to the Euler equations on the direct sums of Lie coalgebras SO(3) are obtained. Reductions and integrable cases of the equations for the rotation of a heavy Ck-central configuration about a fixed point are indicated. Separation of rotations of a space station type orbiting system, which is a Ck-central configuration of rigid bodies, is proved. This result leads to the possibility of independent stabilization of rotations of the rigid bodies in such orbiting configurations. Integrability of the inertial dynamics of CRn-central configurations of coupled gyrostats is proved.

  14. Coupling population dynamics with earth system models: the POPEM model.

    Science.gov (United States)

    Navarro, Andrés; Moreno, Raúl; Jiménez-Alcázar, Alfonso; Tapiador, Francisco J

    2017-09-16

    Precise modeling of CO 2 emissions is important for environmental research. This paper presents a new model of human population dynamics that can be embedded into ESMs (Earth System Models) to improve climate modeling. Through a system dynamics approach, we develop a cohort-component model that successfully simulates historical population dynamics with fine spatial resolution (about 1°×1°). The population projections are used to improve the estimates of CO 2 emissions, thus transcending the bulk approach of existing models and allowing more realistic non-linear effects to feature in the simulations. The module, dubbed POPEM (from Population Parameterization for Earth Models), is compared with current emission inventories and validated against UN aggregated data. Finally, it is shown that the module can be used to advance toward fully coupling the social and natural components of the Earth system, an emerging research path for environmental science and pollution research.

  15. Effects of static magnetic fields on the structure, polymerization, and bioelectric of tubulin assemblies.

    Science.gov (United States)

    Mousavidoust, Sarah; Mobasheri, Hamid; Riazi, Gholam Hossein

    2017-11-01

    Due to widespread exposure of human being to various sources of static magnetic fields (SMF), their effect on the spatial and temporal status of structure, arrangement, and polymerization of tubulin was studied at the molecular level. The intrinsic fluorescence intensity of tubulin was increased by SMF, indicating the repositioning of tryptophan and tyrosine residues. Circular Dichroism spectroscopy revealed variations in the ratios of alpha helix, beta, and random coil structures of tubulin as a result of exposure to SMF at 100, 200, and 300 mT. Transmission Electron microscopy of microtubules showed breaches and curvatures whose risk of occurrence increased as a function of field strength. Dynamic light scattering revealed an increase in the surface potential of tubulin aggregates exposed to SMF. The rate and extent of polymerization increased by 9.8 and 33.8%, at 100 and 300 mT, respectively, but decreased by 36.16% at 200 mT. The conductivity of polymerized tubulin increased in the presence of 100 and 300 mT SMF but remained the same as the control at 200 mT. The analysis of flexible amino acids along the sequence of tubulin revealed higher SMF susceptibility in the helical electron conduction pathway set through histidines rather than the vertical electron conduction pathway formed by tryptophan residues. The results reveal structural and functional effects of SMF on tubulin assemblies and microtubules that can be considered as a potential means to address the safety issues and for manipulation of bioelectrical characteristics of cytosol, intracellular trafficking and thus, the living status of cells, remotely.

  16. Dynamics of coupled bosonic systems with applications to preheating

    International Nuclear Information System (INIS)

    Cormier, Daniel; Heitmann, Katrin; Mazumdar, Anupam

    2002-01-01

    Coupled, multifield models of inflation can provide several attractive features unavailable in the case of a single inflaton field. These models have a rich dynamical structure resulting from the interaction of the fields and their associated fluctuations. We present a formalism to study the nonequilibrium dynamics of coupled scalar fields. This formalism solves the problem of renormalizing interacting models in a transparent way using dimensional regularization. The evolution is generated by a renormalized effective Lagrangian which incorporates the dynamics of the mean fields and their associated fluctuations at one-loop order. We apply our method to two problems of physical interest: (i) a simple two-field model which exemplifies applications to reheating in inflation, and (ii) a supersymmetric hybrid inflation model. This second case is interesting because inflation terminates via a smooth phase transition which gives rise to a spinodal instability in one of the fields. We study the evolution of the zero mode of the fields and the energy density transfer to the fluctuations from the mean fields. We conclude that back reaction effects can be significant over a wide parameter range. In particular for the supersymmetric hybrid model we find that particle production can be suppressed due to these effects

  17. General dynamical properties of cosmological models with nonminimal kinetic coupling

    Science.gov (United States)

    Matsumoto, Jiro; Sushkov, Sergey V.

    2018-01-01

    We consider cosmological dynamics in the theory of gravity with the scalar field possessing the nonminimal kinetic coupling to curvature given as η Gμνphi,μphi,ν, where η is an arbitrary coupling parameter, and the scalar potential V(phi) which assumed to be as general as possible. With an appropriate dimensionless parametrization we represent the field equations as an autonomous dynamical system which contains ultimately only one arbitrary function χ (x)= 8 π | η | V(x/√8 π) with x=√8 πphi. Then, assuming the rather general properties of χ(x), we analyze stationary points and their stability, as well as all possible asymptotical regimes of the dynamical system. It has been shown that for a broad class of χ(x) there exist attractors representing three accelerated regimes of the Universe evolution, including de Sitter expansion (or late-time inflation), the Little Rip scenario, and the Big Rip scenario. As the specific examples, we consider a power-law potential V(phi)=M4(phi/phi0)σ, Higgs-like potential V(phi)=λ/4(phi2‑phi02)2, and exponential potential V(phi)=M4 e‑phi/phi0.

  18. Social strain, couple dynamics and gender differences in gambling problems: evidence from Chinese married couples.

    Science.gov (United States)

    Cheung, Nicole W T

    2015-02-01

    Knowledge of the influence of couple dynamics on gender differences in gambling behavior remains meager. Building on general strain theory from the sociology of deviance and stress crossover theory from social psychology, we argue that the strain encountered by one partner in a social setting may affect his or her spouse. For instance, the wife of a man under more social strain may experience more strain in turn and thus be at a higher risk of developing disordered gambling than the wife of a man under less social strain. Using community survey data of 1620 Chinese married couples, we performed multilevel dyad analyses to address social strain and couple dynamics, in addition to their roles as predictors of gambling behavior in both spouses. This was a community survey of Hong Kong and therefore was not representative of China. Based on the DSM-IV screen, the rates of probable problem gambling and pathological gambling among male partners (12.8% vs. 2.5%) were twice those among female partners (5.2% vs. 0.3%). We also found that the social strain experienced by a male partner significantly predicted both his and his wife's likelihood of developing gambling problems. Although a female partner's exposure to social strain was a significant correlate of her gambling problem, it had no significant association with her husband's gambling behavior. These results suggest that the cross-spouse transference of social strain may be a gendered process. Copyright © 2014 Elsevier Ltd. All rights reserved.

  19. Coupled Dynamic Modeling of Floating Wind Turbine Systems: Preprint

    Energy Technology Data Exchange (ETDEWEB)

    Wayman, E. N.; Sclavounos, P. D.; Butterfield, S.; Jonkman, J.; Musial, W.

    2006-03-01

    This article presents a collaborative research program that the Massachusetts Institute of Technology (MIT) and the National Renewable Energy Laboratory (NREL) have undertaken to develop innovative and cost-effective floating and mooring systems for offshore wind turbines in water depths of 10-200 m. Methods for the coupled structural, hydrodynamic, and aerodynamic analysis of floating wind turbine systems are presented in the frequency domain. This analysis was conducted by coupling the aerodynamics and structural dynamics code FAST [4] developed at NREL with the wave load and response simulation code WAMIT (Wave Analysis at MIT) [15] developed at MIT. Analysis tools were developed to consider coupled interactions between the wind turbine and the floating system. These include the gyroscopic loads of the wind turbine rotor on the tower and floater, the aerodynamic damping introduced by the wind turbine rotor, the hydrodynamic damping introduced by wave-body interactions, and the hydrodynamic forces caused by wave excitation. Analyses were conducted for two floater concepts coupled with the NREL 5-MW Offshore Baseline wind turbine in water depths of 10-200 m: the MIT/NREL Shallow Drafted Barge (SDB) and the MIT/NREL Tension Leg Platform (TLP). These concepts were chosen to represent two different methods of achieving stability to identify differences in performance and cost of the different stability methods. The static and dynamic analyses of these structures evaluate the systems' responses to wave excitation at a range of frequencies, the systems' natural frequencies, and the standard deviations of the systems' motions in each degree of freedom in various wind and wave environments. This article in various wind and wave environments. This article explores the effects of coupling the wind turbine with the floating platform, the effects of water depth, and the effects of wind speed on the systems' performance. An economic feasibility analysis of

  20. Robustness and dynamics of networks of coupled modules

    Science.gov (United States)

    Bagrow, James; Ahn, Yong-Yeol; Lehmann, Sune

    2011-03-01

    Many systems, from power grids and the internet, to the brain and society, can be modeled using networks of coupled overlapping modules. The elements of these networks perform individual and collective tasks such as generating and consuming electrical load or transmitting data. We study the robustness of these systems using percolation theory: a random fraction of the elements fail which may cause the network to lose global connectivity. We show that the modules themselves can become isolated or uncoupled (non-overlapping) well before the network falls apart. This has important structural and dynamical consequences for these networks and may explain how missing information hides pervasive overlap between communities in real networks.

  1. A variational formulation for linear models in coupled dynamic thermoelasticity

    International Nuclear Information System (INIS)

    Feijoo, R.A.; Moura, C.A. de.

    1981-07-01

    A variational formulation for linear models in coupled dynamic thermoelasticity which quite naturally motivates the design of a numerical scheme for the problem, is studied. When linked to regularization or penalization techniques, this algorithm may be applied to more general models, namely, the ones that consider non-linear constraints associated to variational inequalities. The basic postulates of Mechanics and Thermodynamics as well as some well-known mathematical techniques are described. A thorough description of the algorithm implementation with the finite-element method is also provided. Proofs for existence and uniqueness of solutions and for convergence of the approximations are presented, and some numerical results are exhibited. (Author) [pt

  2. The Caenorhabditis elegans Elongator complex regulates neuronal alpha-tubulin acetylation.

    Directory of Open Access Journals (Sweden)

    Jachen A Solinger

    2010-01-01

    Full Text Available Although acetylated alpha-tubulin is known to be a marker of stable microtubules in neurons, precise factors that regulate alpha-tubulin acetylation are, to date, largely unknown. Therefore, a genetic screen was employed in the nematode Caenorhabditis elegans that identified the Elongator complex as a possible regulator of alpha-tubulin acetylation. Detailed characterization of mutant animals revealed that the acetyltransferase activity of the Elongator is indeed required for correct acetylation of microtubules and for neuronal development. Moreover, the velocity of vesicles on microtubules was affected by mutations in Elongator. Elongator mutants also displayed defects in neurotransmitter levels. Furthermore, acetylation of alpha-tubulin was shown to act as a novel signal for the fine-tuning of microtubules dynamics by modulating alpha-tubulin turnover, which in turn affected neuronal shape. Given that mutations in the acetyltransferase subunit of the Elongator (Elp3 and in a scaffold subunit (Elp1 have previously been linked to human neurodegenerative diseases, namely Amyotrophic Lateral Sclerosis and Familial Dysautonomia respectively highlights the importance of this work and offers new insights to understand their etiology.

  3. Collective dynamics of simple liquids: A mode-coupling description

    Directory of Open Access Journals (Sweden)

    W.Schirmacher

    2008-03-01

    Full Text Available We use the mode-coupling theory (MCT, which has been highly successful in accounting for the anomalous relaxation behaviour near the liquid-to-glass transition, for describing the dynamics of simple (i.e. monatomic liquids away from the glass formation regime. We find that the dynamical structure factor predicted by MCT compares well to experimental findings and results of computer simulations. The memory function exhibits a two-step decay as found frequently in experimental and simulation data. The long-time relaxation regime, in which the relaxation rate strongly depends on the density and is identified as the α relaxation. At high density this process leads the glass instability. The short-time relaxation rate is fairly independent of density.

  4. Nonlinearly coupled dynamics of irregularities in the equatorial electrojet

    International Nuclear Information System (INIS)

    Atul, J.K.; Sarkar, S.; Singh, S.K.

    2016-01-01

    Kinetic wave description is used to study the nonlinear influence of background Farley Buneman (FB) modes on the Gradient Drift (GD) modes in the equatorial electrojet ionosphere. The dominant nonlinearity is mediated through the electron flux term in the governing fluid equation which further invokes a turbulent current into the system. Electron dynamics reveals the modification in electron collision frequency and inhomogeneity scale length. It is seen that the propagation and growth rate of GD modes get modified by the background FB modes. Also, a new quasimode gets excited through the quadratic dispersion relation. Physical significance of coupled dynamics between the participating modes is also discussed. - Highlights: • Nonlinear influence of Farley Buneman mode on the Gradient drift mode, is investigated. • Electron collision frequency and density gradient scale length get modified. • A new quasimode gets excited due to the competition between these modes. • It seems to be important for modelling of Equatorial Electrojet current system.

  5. Dynamic stabilization of a coupled ultracold atom-molecule system.

    Science.gov (United States)

    Li, Sheng-Chang; Ye, Chong

    2015-12-01

    We numerically demonstrate the dynamic stabilization of a strongly interacting many-body bosonic system which can be realized by coupled ultracold atom-molecule gases. The system is initialized to an unstable equilibrium state corresponding to a saddle point in the classical phase space, where subsequent free evolution gives rise to atom-molecule conversion. To control and stabilize the system, periodic modulation is applied that suddenly shifts the relative phase between the atomic and the molecular modes and limits their further interconversion. The stability diagram for the range of modulation amplitudes and periods that stabilize the dynamics is given. The validity of the phase diagram obtained from the time-average calculation is discussed by using the orbit tracking method, and the difference in contrast with the maximum absolute deviation analysis is shown as well. A brief quantum analysis shows that quantum fluctuations can put serious limitations on the applicability of the mean-field results.

  6. Spin-coupled charge dynamics in layered manganite crystals

    CERN Document Server

    Tokura, Y; Ishikawa, T

    1998-01-01

    Anisotropic charge dynamics has been investigated for single crystals of layered manganites, La sub 2 sub - sub 2 sub x Sr sub 1 sub + sub 2 sub x Mn sub 2 O sub 7 (0.3<=X<=0.5). Remarkable variations in the magnetic structure and in the charge-transport properties are observed by changing the doping level x . A crystal with x = 0.3 behaves like a 2-dimensional ferromagnetic metal in the temperature region between approx 90 K and approx 270 K and shows an interplane tunneling magnetoresistance at lower temperatures which is sensitive to the interplane magnetic coupling between the adjacent MnO sub 2 bilayers. Optical probing of these layered manganites has also clarified the highly anisotropic and incoherent charge dynamics.

  7. Rationalization of paclitaxel insensitivity of yeast β-tubulin and human βIII-tubulin isotype using principal component analysis

    Directory of Open Access Journals (Sweden)

    Das Lalita

    2012-08-01

    Full Text Available Abstract Background The chemotherapeutic agent paclitaxel arrests cell division by binding to the hetero-dimeric protein tubulin. Subtle differences in tubulin sequences, across eukaryotes and among β-tubulin isotypes, can have profound impact on paclitaxel-tubulin binding. To capture the experimentally observed paclitaxel-resistance of human βIII tubulin isotype and yeast β-tubulin, within a common theoretical framework, we have performed structural principal component analyses of β-tubulin sequences across eukaryotes. Results The paclitaxel-resistance of human βIII tubulin isotype and yeast β-tubulin uniquely mapped on to the lowest two principal components, defining the paclitaxel-binding site residues of β-tubulin. The molecular mechanisms behind paclitaxel-resistance, mediated through key residues, were identified from structural consequences of characteristic mutations that confer paclitaxel-resistance. Specifically, Ala277 in βIII isotype was shown to be crucial for paclitaxel-resistance. Conclusions The present analysis captures the origin of two apparently unrelated events, paclitaxel-insensitivity of yeast tubulin and human βIII tubulin isotype, through two common collective sequence vectors.

  8. Coupled dynamic analysis of subsea pipe laying operations

    Energy Technology Data Exchange (ETDEWEB)

    Silva, Danilo Machado Lawinscky da; Jacob, Breno Pinheiro [Coordenacao dos Programas de Pos-graduacao de Engenharia (COPPE/UFRJ), Rio de Janeiro, RJ (Brazil). Programa de Engenharia Civil. Lab. of Computational Methods and Offshore Systems

    2009-12-19

    It is recognized that deep water offshore oil exploitation activities requires the use of sophisticated computational tools to predict the behavior of floating offshore systems under the action of environmental loads. These computational tools should be able to perform coupled dynamic analyses, considering the non-linear interaction of the hydrodynamic behavior of the platform with the structural/hydrodynamic behavior of the mooring lines and risers, represented by Finite Element models. The use of such a sophisticated computational tool becomes mandatory not only for the design of production platforms, but also for the simulation of offshore installation operations. For instance, in the installation of submarine pipelines, the wall thickness design may not be governed by the pressure containment requirements of the pipeline during the operation, but by the installation process, specifically the combined action of bending, tension and hydrostatic pressure acting on the pipeline, that is also submitted to the motions of the lay barge. Therefore, the objective of this work is to present the results of numerical simulations of S-lay installation procedures using a computational tool that performs dynamic analysis coupling the structural behavior of the pipe with the hydrodynamic behavior of the vessel motions under environmental conditions. This tool rigorously considers the contact between the pipeline and its supports (lay barge, stinger, seabed). The results are compared to traditional pipe laying simulations based on RAO motions. (author)

  9. Tubulin binding cofactor C (TBCC) suppresses tumor growth and enhances chemosensitivity in human breast cancer cells

    International Nuclear Information System (INIS)

    Hage-Sleiman, Rouba; Herveau, Stéphanie; Matera, Eva-Laure; Laurier, Jean-Fabien; Dumontet, Charles

    2010-01-01

    Microtubules are considered major therapeutic targets in patients with breast cancer. In spite of their essential role in biological functions including cell motility, cell division and intracellular transport, microtubules have not yet been considered as critical actors influencing tumor cell aggressivity. To evaluate the impact of microtubule mass and dynamics on the phenotype and sensitivity of breast cancer cells, we have targeted tubulin binding cofactor C (TBCC), a crucial protein for the proper folding of α and β tubulins into polymerization-competent tubulin heterodimers. We developed variants of human breast cancer cells with increased content of TBCC. Analysis of proliferation, cell cycle distribution and mitotic durations were assayed to investigate the influence of TBCC on the cell phenotype. In vivo growth of tumors was monitored in mice xenografted with breast cancer cells. The microtubule dynamics and the different fractions of tubulins were studied by time-lapse microscopy and lysate fractionation, respectively. In vitro sensitivity to antimicrotubule agents was studied by flow cytometry. In vivo chemosensitivity was assayed by treatment of mice implanted with tumor cells. TBCC overexpression influenced tubulin fraction distribution, with higher content of nonpolymerizable tubulins and lower content of polymerizable dimers and microtubules. Microtubule dynamicity was reduced in cells overexpressing TBCC. Cell cycle distribution was altered in cells containing larger amounts of TBCC with higher percentage of cells in G2-M phase and lower percentage in S-phase, along with slower passage into mitosis. While increased content of TBCC had little effect on cell proliferation in vitro, we observed a significant delay in tumor growth with respect to controls when TBCC overexpressing cells were implanted as xenografts in vivo. TBCC overexpressing variants displayed enhanced sensitivity to antimicrotubule agents both in vitro and in xenografts. These

  10. Coupling dynamics in speech gestures: amplitude and rate influences.

    Science.gov (United States)

    van Lieshout, Pascal H H M

    2017-08-01

    Speech is a complex oral motor function that involves multiple articulators that need to be coordinated in space and time at relatively high movement speeds. How this is accomplished remains an important and largely unresolved empirical question. From a coordination dynamics perspective, coordination involves the assembly of coordinative units that are characterized by inherently stable coupling patterns that act as attractor states for task-specific actions. In the motor control literature, one particular model formulated by Haken et al. (Biol Cybern 51(5):347-356, 1985) or HKB has received considerable attention in the way it can account for changes in the nature and stability of specific coordination patterns between limbs or between limbs and external stimuli. In this model (and related versions), movement amplitude is considered a critical factor in the formation of these patterns. Several studies have demonstrated its role for bimanual coordination and similar types of tasks, but for speech motor control such studies are lacking. The current study describes a systematic approach to evaluate the impact of movement amplitude and movement duration on coordination stability in the production of bilabial and tongue body gestures for specific vowel-consonant-vowel strings. The vowel combinations that were used induced a natural contrast in movement amplitude at three speaking rate conditions (slow, habitual, fast). Data were collected on ten young adults using electromagnetic articulography, recording movement data from lips and tongue with high temporal and spatial precision. The results showed that with small movement amplitudes there is a decrease in coordination stability, independent from movement duration. These findings were found to be robust across all individuals and are interpreted as further evidence that principles of coupling dynamics operate in the oral motor control system similar to other motor systems and can be explained in terms of coupling

  11. Male Same Sex Couple Dynamics and Received Social Support for HIV Medication Adherence

    OpenAIRE

    Wrubel, Judith; Stumbo, Scott; Johnson, Mallory O.

    2010-01-01

    This qualitative study examines received social support by analyzing relationship dynamics concerning antiretroviral therapy (ART) adherence among HIV+ seroconcordant and serodiscordant male couples. Using narrative data from forty participants (20 couples interviewed separately), we describe patterns of relationship dynamics and support preferences. One group viewed adherence as a Personal Responsibility. A second group viewed adherence as a Couple Responsibility and integrated support for m...

  12. Large mass hierarchies from strongly-coupled dynamics

    Science.gov (United States)

    Athenodorou, Andreas; Bennett, Ed; Bergner, Georg; Elander, Daniel; Lin, C.-J. David; Lucini, Biagio; Piai, Maurizio

    2016-06-01

    Besides the Higgs particle discovered in 2012, with mass 125 GeV, recent LHC data show tentative signals for new resonances in diboson as well as diphoton searches at high center-of-mass energies (2 TeV and 750 GeV, respectively). If these signals are confirmed (or other new resonances are discovered at the TeV scale), the large hierarchies between masses of new bosons require a dynamical explanation. Motivated by these tentative signals of new physics, we investigate the theoretical possibility that large hierarchies in the masses of glueballs could arise dynamically in new strongly-coupled gauge theories extending the standard model of particle physics. We study lattice data on non-Abelian gauge theories in the (near-)conformal regime as well as a simple toy model in the context of gauge/gravity dualities. We focus our attention on the ratio R between the mass of the lightest spin-2 and spin-0 resonances, that for technical reasons is a particularly convenient and clean observable to study. For models in which (non-perturbative) large anomalous dimensions arise dynamically, we show indications that this mass ratio can be large, with R>5. Moreover,our results suggest that R might be related to universal properties of the IR fixed point. Our findings provide an interesting step towards understanding large mass ratios in the non-perturbative regime of quantum field theories with (near) IR conformal behaviour.

  13. Tubulin perturbation leads to unexpected cell wall modifications and affects stomatal behaviour in Populus.

    Science.gov (United States)

    Swamy, Prashant S; Hu, Hao; Pattathil, Sivakumar; Maloney, Victoria J; Xiao, Hui; Xue, Liang-Jiao; Chung, Jeng-Der; Johnson, Virgil E; Zhu, Yingying; Peter, Gary F; Hahn, Michael G; Mansfield, Shawn D; Harding, Scott A; Tsai, Chung-Jui

    2015-10-01

    Cortical microtubules are integral to plant morphogenesis, cell wall synthesis, and stomatal behaviour, presumably by governing cellulose microfibril orientation. Genetic manipulation of tubulins often leads to abnormal plant development, making it difficult to probe additional roles of cortical microtubules in cell wall biogenesis. Here, it is shown that expressing post-translational C-terminal modification mimics of α-tubulin altered cell wall characteristics and guard cell dynamics in transgenic Populus tremula x alba that otherwise appear normal. 35S promoter-driven transgene expression was high in leaves but unusually low in xylem, suggesting high levels of tubulin transgene expression were not tolerated in wood-forming tissues during regeneration of transformants. Cellulose, hemicellulose, and lignin contents were unaffected in transgenic wood, but expression of cell wall-modifying enzymes, and extractability of lignin-bound pectin and xylan polysaccharides were increased in developing xylem. The results suggest that pectin and xylan polysaccharides deposited early during cell wall biogenesis are more sensitive to subtle tubulin perturbation than cellulose and matrix polysaccharides deposited later. Tubulin perturbation also affected guard cell behaviour, delaying drought-induced stomatal closure as well as light-induced stomatal opening in leaves. Pectins have been shown to confer cell wall flexibility critical for reversible stomatal movement, and results presented here are consistent with microtubule involvement in this process. Taken together, the data show the value of growth-compatible tubulin perturbations for discerning microtubule functions, and add to the growing body of evidence for microtubule involvement in non-cellulosic polysaccharide assembly during cell wall biogenesis. © The Author 2015. Published by Oxford University Press on behalf of the Society for Experimental Biology.

  14. Dynamics of neuro-effector coupling at 'cardiac sympathetic' synapses.

    Science.gov (United States)

    Prando, Valentina; Da Broi, Francesca; Franzoso, Mauro; Plazzo, Anna Pia; Pianca, Nicola; Francolini, Maura; Basso, Cristina; Kay, Matthew W; Zaglia, Tania; Mongillo, Marco

    2018-03-10

    Cardiac sympathetic neurons (SNs) finely tune the rate and strength of heart contractions to match the blood demand, both at rest and during acute stresses, through the release of norepinephrine (NE). Junctional sites at the interface between the two cell types have been observed, but whether direct neuro-cardiac coupling has a role in heart physiology has not thus far been clearly demonstrated. We investigated the dynamics of SN/cardiomyocyte intercellular signalling, both by FRET-based imaging of cAMP in co-cultures, as a readout of cardiac β-AR activation, and in vivo, using optogenetics in transgenic mice with SN-specific expression of Channelrhodopsin-2. We demonstrate that SNs and cardiomyocytes interact at specific sites both in the human and rodent heart, and in co-cultures. Accordingly, neuronal activation elicited intracellular cAMP increases only in directly contacted myocytes and cell-cell coupling utilized a junctional extracellular signalling domain with elevated NE concentration. In the living mouse, optogenetic activation of cardiac SNs innervating the sino-atrial node resulted in an instantaneous chronotropic effect, which shortened the heartbeat interval with single beat precision. Remarkably, inhibition of the optogenetically elicited chronotropic responses required a high dose of propranolol (20-50 mg/Kg), suggesting that sympathetic neurotransmission in the heart occurs at locally elevated NE concentration. Our in vitro and in vivo data suggest that the control of cardiac function, by SNs, occurs via direct intercellular coupling due to the establishment of a specific junctional-site. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

  15. Assessing Coupling Dynamics from an Ensemble of Time Series

    Directory of Open Access Journals (Sweden)

    Germán Gómez-Herrero

    2015-04-01

    Full Text Available Finding interdependency relations between time series provides valuable knowledge about the processes that generated the signals. Information theory sets a natural framework for important classes of statistical dependencies. However, a reliable estimation from information-theoretic functionals is hampered when the dependency to be assessed is brief or evolves in time. Here, we show that these limitations can be partly alleviated when we have access to an ensemble of independent repetitions of the time series. In particular, we gear a data-efficient estimator of probability densities to make use of the full structure of trial-based measures. By doing so, we can obtain time-resolved estimates for a family of entropy combinations (including mutual information, transfer entropy and their conditional counterparts, which are more accurate than the simple average of individual estimates over trials. We show with simulated and real data generated by coupled electronic circuits that the proposed approach allows one to recover the time-resolved dynamics of the coupling between different subsystems.

  16. Static and Dynamic Amplification Using Strong Mechanical Coupling

    KAUST Repository

    Ilyas, Saad

    2016-07-28

    Amplifying the signal-to-noise ratio of resonant sensors is vital toward the effort to miniaturize devices into the sub-micro and nano regimes. In this paper, we demonstrate theoretically and experimentally, amplification through mechanically coupled microbeams. The device is composed of two identical clamped-clamped beams, made of polyimide, connected at their middle through a third beam, which acts as a mechanical coupler. Each of the clamped-clamped microbeams and the coupler are designed to be actuated separately, hence providing various possibilities of actuation and sensing. The coupled resonator is driven into resonance near its first resonance mode and its dynamic behavior is explored via frequency sweeps. The results show significant amplification in the resonator amplitude when the signal is measured at the midpoint of the coupler compared with the response of the individual uncoupled beams. The static pull-in characteristics of the resonator are also studied. It is shown that the compliant mechanical coupler can serve as a low-power radio frequency switch actuated at low voltage loads. [2016-0100

  17. Coupled rotational dynamics of Jupiter's thermosphere and magnetosphere

    Directory of Open Access Journals (Sweden)

    C. G. A. Smith

    2009-01-01

    Full Text Available We describe an axisymmetric model of the coupled rotational dynamics of the thermosphere and magnetosphere of Jupiter that incorporates self-consistent physical descriptions of angular momentum transfer in both systems. The thermospheric component of the model is a numerical general circulation model. The middle magnetosphere is described by a simple physical model of angular momentum transfer that incorporates self-consistently the effects of variations in the ionospheric conductivity. The outer magnetosphere is described by a model that assumes the existence of a Dungey cycle type interaction with the solar wind, producing at the planet a largely stagnant plasma flow poleward of the main auroral oval. We neglect any decoupling between the plasma flows in the magnetosphere and ionosphere due to the formation of parallel electric fields in the magnetosphere. The model shows that the principle mechanism by which angular momentum is supplied to the polar thermosphere is meridional advection and that mean-field Joule heating and ion drag at high latitudes are not responsible for the high thermospheric temperatures at low latitudes on Jupiter. The rotational dynamics of the magnetosphere at radial distances beyond ~30 RJ in the equatorial plane are qualitatively unaffected by including the detailed dynamics of the thermosphere, but within this radial distance the rotation of the magnetosphere is very sensitive to the rotation velocity of the thermosphere and the value of the Pedersen conductivity. In particular, the thermosphere connected to the inner magnetosphere is found to super-corotate, such that true Pedersen conductivities smaller than previously predicted are required to enforce the observed rotation of the magnetosphere within ~30 RJ. We find that increasing the Joule heating at high latitudes by adding a component due to rapidly fluctuating electric fields is unable to explain the high equatorial temperatures. Adding a component of Joule

  18. Effect of Magnetohydrodynamic Couple Stresses on Dynamic Characteristics of Exponential Slider Bearing

    Directory of Open Access Journals (Sweden)

    N.B. Naduvinamani

    2017-05-01

    Full Text Available The effect of couple stresses on static and dynamic characteristics of exponential slider bearing in the presence of magnetic field considering squeeze action is theoretically analyzed in this paper. The modified magnetohydrodynamic couple stress Reynolds type equation is derived on the basis of Stokes couple stress model and closed form expressions are obtained for static and dynamic character coefficients. Comparing with bearing lubricated with non-conducting Newtonian lubricants, the magnetohydrodynamic couple stress lubrication provides the higher steady load carrying capacity, dynamic stiffness and damping coefficient. The exponential bearing shows higher efficiency for small film thickness at higher value of couple stress parameter and Hartmann number.

  19. Fasciola hepatica expresses multiple α- and β-tubulin isotypes

    Science.gov (United States)

    Ryan, Louise A.; Hoey, Elizabeth; Trudgett, Alan; Fairweather, Ian; Fuchs, Marc; Robinson, Mark W.; Chambers, Emma; Timson, David J.; Ryan, Eimear; Feltwell, Theresa; Ivens, Al; Bentley, Geoffrey; Johnston, David

    2008-01-01

    We have identified five α-tubulin and six β-tubulin isotypes that are expressed in adult Fasciola hepatica. Amino acid sequence identities ranged between 72 and 95% for fluke α-tubulin and between 65 and 97% for β-tubulin isotypes. Nucleotide sequence identity ranged between 68–77% and 62–80%, respectively, for their coding sequences. Phylogenetic analysis indicated that two of the α-tubulins and two of the β-tubulins were distinctly divergent from the other trematode and nematode tubulin sequences described in this study, whereas the other isotypes segregated within the trematode clades. With regard to the proposed benzimidazole binding site on β-tubulin, three of the fluke isotypes had tyrosine at position 200 of β-tubulin, two had phenylalanine and one had leucine. All had phenylalanine at position 167 and glutamic acid at position 198. When isotype RT-PCR fragment sequences were compared between six individual flukes from the susceptible Cullompton isolate and from seven individual flukes from the two resistant isolates, Sligo and Oberon, these residues were conserved. PMID:18372053

  20. Wealth distribution of simple exchange models coupled with extremal dynamics

    Science.gov (United States)

    Bagatella-Flores, N.; Rodríguez-Achach, M.; Coronel-Brizio, H. F.; Hernández-Montoya, A. R.

    2015-01-01

    Punctuated Equilibrium (PE) states that after long periods of evolutionary quiescence, species evolution can take place in short time intervals, where sudden differentiation makes new species emerge and some species extinct. In this paper, we introduce and study the effect of punctuated equilibrium on two different asset exchange models: the yard sale model (YS, winner gets a random fraction of a poorer player's wealth) and the theft and fraud model (TF, winner gets a random fraction of the loser's wealth). The resulting wealth distribution is characterized using the Gini index. In order to do this, we consider PE as a perturbation with probability ρ of being applied. We compare the resulting values of the Gini index at different increasing values of ρ in both models. We found that in the case of the TF model, the Gini index reduces as the perturbation ρ increases, not showing dependence with the agents number. While for YS we observe a phase transition which happens around ρc = 0.79. For perturbations ρ <ρc the Gini index reaches the value of one as time increases (an extreme wealth condensation state), whereas for perturbations greater than or equal to ρc the Gini index becomes different to one, avoiding the system reaches this extreme state. We show that both simple exchange models coupled with PE dynamics give more realistic results. In particular for YS, we observe a power low decay of wealth distribution.

  1. On the Dynamics of Edge-core Coupling

    International Nuclear Information System (INIS)

    Hahm, T.S.; Diamond, P.H.; Lin, Z.; Rewoldt, G.; Gurcan, O.; Ethier, S.

    2005-01-01

    One of the nagging, unresolved questions in fusion theory is concerned with the extent of the edge. Gyrokinetic particle simulations of toroidal ion temperature gradient (ITG) turbulence spreading using the Gyrokinetic Toroidal Code (GTC) [Z. Lin et al., Science 281, 1835 (1998)] and its related dynamical model have been extended to a system with radially varying ion temperature gradient, in order to study the inward spreading of edge turbulence toward the core plasma. Due to such spreading, the turbulence intensity in the core region is significantly enhanced over the value obtained from simulations of the core region only, and the precise boundary of the edge region is blurred. Even when the core gradient is within the Dimits shift regime (i.e., dominated by self-generated zonal flows which reduce the transport to a negligible value), a significant level of turbulence can penetrate to the core due to spreading from the edge. The scaling of the turbulent front propagation speed is closer to the prediction from a nonlinear diffusion model than from one based on linear toroidal coupling

  2. Dynamic of Ising model with transverse field for two coupled sublattices in disordered phase

    International Nuclear Information System (INIS)

    Sa Motta, C.E.H. de.

    1984-02-01

    The dynamics of the two coupled sublattices tridimensional Ising model in a transverse field was studied by means of a continued fraction expansion for coupled operators. The static Correlation Functions necessary for studying the dynamics were calculated with the Green's Functions Method in the Random Phase Approximation (RPA). The spectral function was calculated in the region T c → . (Author) [pt

  3. Adaptive control of structural balance for complex dynamical networks based on dynamic coupling of nodes

    Science.gov (United States)

    Gao, Zilin; Wang, Yinhe; Zhang, Lili

    2018-02-01

    In the existing research results of the complex dynamical networks controlled, the controllers are mainly used to guarantee the synchronization or stabilization of the nodes’ state, and the terms coupled with connection relationships may affect the behaviors of nodes, this obviously ignores the dynamic common behavior of the connection relationships between the nodes. In fact, from the point of view of large-scale system, a complex dynamical network can be regarded to be composed of two time-varying dynamic subsystems, which can be called the nodes subsystem and the connection relationships subsystem, respectively. Similar to the synchronization or stabilization of the nodes subsystem, some characteristic phenomena can be also emerged in the connection relationships subsystem. For example, the structural balance in the social networks and the synaptic facilitation in the biological neural networks. This paper focuses on the structural balance in dynamic complex networks. Generally speaking, the state of the connection relationships subsystem is difficult to be measured accurately in practical applications, and thus it is not easy to implant the controller directly into the connection relationships subsystem. It is noted that the nodes subsystem and the relationships subsystem are mutually coupled, which implies that the state of the connection relationships subsystem can be affected by the controllable state of nodes subsystem. Inspired by this observation, by using the structural balance theory of triad, the controller with the parameter adaptive law is proposed for the nodes subsystem in this paper, which may ensure the connection relationship matrix to approximate a given structural balance matrix in the sense of the uniformly ultimately bounded (UUB). That is, the structural balance may be obtained by employing the controlling state of the nodes subsystem. Finally, the simulations are used to show the validity of the method in this paper.

  4. Tubulin targets in the pathobiology and therapy of glioblastoma multiforme. I. class III beta-tubulin

    Czech Academy of Sciences Publication Activity Database

    Katsetos, C.D.; Dráberová, Eduarda; Legido, A.; Dumontet, C.; Dráber, Pavel

    2009-01-01

    Roč. 221, č. 3 (2009), s. 505-513 ISSN 0021-9541 R&D Projects: GA AV ČR KAN200520701 Institutional research plan: CEZ:AV0Z50520514 Keywords : Beta-II-tubulin * glioblastoma Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 4.586, year: 2009

  5. The effect of finite response–time in coupled dynamical systems

    Indian Academy of Sciences (India)

    Abstract. The paper investigates synchronization in unidirectionally coupled dynamical systems wherein the influence of drive on response is cumulative: coupling signals are integrated over a time interval τ. A major consequence of integrative coupling is that the onset of the generalized and phase synchronization occurs ...

  6. The effect of finite response–time in coupled dynamical systems

    Indian Academy of Sciences (India)

    Corresponding author. E-mail: gsaxena2006@yahoo.co.in. Abstract. The paper investigates synchronization in unidirectionally coupled dynamical systems wherein the influence of drive on response is cumulative: coupling signals are integrated over a time interval τ. A major consequence of integrative coupling is that the ...

  7. Dynamic Characteristics of Magnetic Coupling in Horizontal Axis Wave Energy Device

    Directory of Open Access Journals (Sweden)

    Zhang Jian

    2017-11-01

    Full Text Available To solve the dynamic response problems of magnetic coupling in the horizontal axis wave energy device, this has researched the dynamic characteristicsof magnetic coupling. The fitting formula about torque and angle of the magnetic coupling is obtained through experiments. The mathematical models of the magnetic coupling torque transmission are established. The steady state error of the magnetic coupling and the transfer function of the output angle are obtained. The analytical solution of the step response of the output angle in time domain is derived. The influence of the torsional rigidity, the damping coefficient and the driven rotor’s rotational inertia on dynamic characteristics of the magnetic coupling isanalyzed. According to the analysis results, the design rules of magnetic coupling are proposed.

  8. Structures of potent anticancer compounds bound to tubulin.

    Science.gov (United States)

    McNamara, Dan E; Senese, Silvia; Yeates, Todd O; Torres, Jorge Z

    2015-07-01

    Small molecules that bind to tubulin exert powerful effects on cell division and apoptosis (programmed cell death). Cell-based high-throughput screening combined with chemo/bioinformatic and biochemical analyses recently revealed a novel compound MI-181 as a potent mitotic inhibitor with heightened activity towards melanomas. MI-181 causes tubulin depolymerization, activates the spindle assembly checkpoint arresting cells in mitosis, and induces apoptotic cell death. C2 is an unrelated compound previously shown to have lethal effects on microtubules in tumorigenic cell lines. We report 2.60 Å and 3.75 Å resolution structures of MI-181 and C2, respectively, bound to a ternary complex of αβ-tubulin, the tubulin-binding protein stathmin, and tubulin tyrosine ligase. In the first of these structures, our crystallographic results reveal a unique binding mode for MI-181 extending unusually deep into the well-studied colchicine-binding site on β-tubulin. In the second structure the C2 compound occupies the colchicine-binding site on β-tubulin with two chemical moieties recapitulating contacts made by colchicine, in combination with another system of atomic contacts. These insights reveal the source of the observed effects of MI-181 and C2 on microtubules, mitosis, and cultured cancer cell lines. The structural details of the interaction between tubulin and the described compounds may guide the development of improved derivative compounds as therapeutic candidates or molecular probes to study cancer cell division. © 2015 The Protein Society.

  9. Nonlinear dynamics in integrated coupled DFB lasers with ultra-short delay.

    Science.gov (United States)

    Liu, Dong; Sun, Changzheng; Xiong, Bing; Luo, Yi

    2014-03-10

    We report rich nonlinear dynamics in integrated coupled lasers with ultra-short coupling delay. Mutually stable locking, period-1 oscillation, frequency locking, quasi-periodicity and chaos are observed experimentally. The dynamic behaviors are reproduced numerically by solving coupled delay differential equations that take the variation of both frequency detuning and coupling phase into account. Moreover, it is pointed out that the round-trip frequency is not involved in the above nonlinear dynamical behaviors. Instead, the relationship between the frequency detuning Δν and the relaxation oscillation frequency νr under mutual injection are found to be critical for the various observed dynamics in mutually coupled lasers with very short delay.

  10. Dynamics of hydration water and coupled protein sidechains around a polymerase protein surface

    Science.gov (United States)

    Qin, Yangzhong; Yang, Yi; Wang, Lijuan; Zhong, Dongping

    2017-09-01

    Water-protein coupled interactions are essential to the protein structural stability, flexibility and dynamic functions. The ultimate effects of the hydration dynamics on the protein fluctuations remain substantially unexplored. Here, we investigated the dynamics of both hydration water and protein sidechains at 13 different sites around the polymerase β protein surface using a tryptophan scan with femtosecond spectroscopy. Three types of hydration-water relaxations and two types of protein sidechain motions were determined, reflecting a highly dynamic water-protein interactions fluctuating on the picosecond time scales. The hydration-water dynamics dominate the coupled interactions with higher flexibility.

  11. Energy Band and Josephson Dynamics of Spin-Orbit Coupled Bose-Einstein Condensates

    Science.gov (United States)

    Zhang, Xin; Yu, Zi-Fa; Xue, Ju-Kui

    2015-10-01

    We theoretically investigate the energy band structure and Josephson dynamics of a spin-orbit coupled Bose-Einstein condensate in a double-well potential. We study the energy band structure and the corresponding tunneling dynamics of the system by properly adjusting the SO coupling, Raman coupling, Zeeman field and atomic interactions. The coupled effects of SO coupling, Raman coupling, Zeeman field and atomic interactions lead to the appearance of complex energy band structure including the loop structure. Particularly, the emergence of the loop structure in energy band also depends on SO coupling, Raman coupling, Zeeman field and atomic interactions. Correspondingly, the Josephson dynamics of the system are strongly related to the energy band structure. Especially, the emergence of the loop structure results in complex tunneling dynamics, including suppression-revival transitions and self-trapping of atoms transfer between two spin states and two wells. This engineering provides a possible means for studying energy level and corresponding dynamics of two-species SO coupled BECs. Supported by the National Natural Science Foundation of China under Grant Nos. 11274255 and 11305132, by Specialized Research Fund for the Doctoral Program of Higher Education of China under Grant No. 20136203110001, by the Natural Science Foundation of Gansu province under Grant No. 2011GS04358, and by Creation of Science and Technology of Northwest Normal University under Grant Nos. NWNU-KJCXGC-03-48, NWNU-LKQN-12-12

  12. Differential expression of gamma-tubulin and class III beta-tubulin in medulloblastomas and human medulloblastoma cell lines

    Czech Academy of Sciences Publication Activity Database

    Caracciolo, V.; D´Agostino, L.; Dráberová, Eduarda; Sládková, Vladimíra; Crozier-Fitzgerald, C.; Agamanolis, D.P.; De Chadarévian, J.P.; Legido, A.; Giordano, A.; Dráber, Pavel; Katsetos, C.D.

    2010-01-01

    Roč. 223, č. 2 (2010), s. 519-529 ISSN 0021-9541 R&D Projects: GA AV ČR KAN200520701 Institutional research plan: CEZ:AV0Z50520514 Keywords : gamma-tubulin * beta III-tubulin * meduloblastoma Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 3.986, year: 2010

  13. Structures of a diverse set of colchicine binding site inhibitors in complex with tubulin provide a rationale for drug discovery.

    Science.gov (United States)

    Wang, Yuxi; Zhang, Hang; Gigant, Benoît; Yu, Yamei; Wu, Yangping; Chen, Xiangzheng; Lai, Qinhuai; Yang, Zhaoya; Chen, Qiang; Yang, Jinliang

    2016-01-01

    Microtubules are dynamic assemblies of αβ-tubulin heterodimers and have been recognized as highly attractive targets for cancer chemotherapy. A broad range of agents bind to tubulin and interfere with microtubule assembly. Despite having a long history of characterization, colchicine binding site inhibitors (CBSIs) have not yet reached the commercial phase as anti-cancer drugs to date. We determined the structures of tubulin complexed with a set of structurally diverse CBSIs (lexibulin, nocodazole, plinabulin and tivantinib), among which nocodazole and tivantinib are both binary-function inhibitors targeting cancer-related kinases and microtubules simultaneously. High resolution structures revealed the detailed interactions between these ligands and tubulin. Our results showed that the binding modes of the CBSIs were different from previous docking models, highlighting the importance of crystal structure information in structure-based drug design. A real structure-based pharmacophore was proposed to rationalize key common interactions of the CBSIs at the colchicine domain. Our studies provide a solid structural basis for developing new anti-cancer agents for the colchicine binding site. The atomic coordinates and structure factors for tubulin complexed with lexibulin, nocodazole, plinabulin and tivantinib have been deposited in the Protein Data Bank under accession codes 5CA0, 5CA1, 5C8Y and 5CB4, respectively. © 2015 FEBS.

  14. Dynamical couplings, dynamical vacuum energy and confinement/deconfinement from R2-gravity

    International Nuclear Information System (INIS)

    Guendelman, Eduardo; Kaganovich, Alexander; Nissimov, Emil; Pacheva, Svetlana

    2013-01-01

    We study within Palatini formalism an f(R)-gravity with f(R)=R+αR 2 interacting with a dilaton and a special kind of nonlinear gauge field system containing a square-root of the standard Maxwell term, which is known to produce confinement in flat space–time. Reformulating the model in the physical Einstein frame we find scalar field effective potential with a flat region where the confinement dynamics disappears, while in other regions it remains intact. The effective gauge couplings as well as the induced cosmological constant become dynamical. In particular, a conventional Maxwell kinetic term for the gauge field is dynamically generated even if absent in the original theory. We find few interesting classes of explicit solutions: (i) asymptotically (anti-)de Sitter black holes of non-standard type with additional confining vacuum electric potential even for the electrically neutral ones; (ii) non-standard Reissner–Nordström black holes with additional constant vacuum electric field and having non-flat-space–time “hedgehog” asymptotics; (iii) generalized Levi-Civita–Bertotti–Robinson “tube-like” space–times.

  15. Molecular states of HeH+. Energies and dynamical couplings

    International Nuclear Information System (INIS)

    Macias, A.; Riera, A.; Yanez, M.

    1983-01-01

    We complete the molecular results reported in a previous paper by presenting additional energies (for /sup 1,3/μ states) and radial couplings (between 'μ states) of the HeH + system. These results are needed to treat elastic and inelastic charge-exchange processes when full account is taken of momentum-transfer problems. We also present a formalism to calculate radial couplings between wave functions computed with the use of different variational methods and basis sets. The detailed form of the radial couplings is discussed and related to the Barat-Lichten correlation diagram. The effect of using finite basis sets in calculatig degenerate molecular energies is also discussed

  16. Multimode dynamics in a network with resource mediated coupling

    DEFF Research Database (Denmark)

    Postnov, D.E.; Sosnovtseva, Olga; Scherbakov, P.

    2008-01-01

    state of the individual unit. With this coupling, a spatially inhomogenous state with mixed high and lowamplitude oscillations in the individual units can arise. To examine generic phenomena associated with this type of interaction we consider a chain of resistively coupled electronic oscillators...... connected to a common power supply. The two- oscillator system displays antiphase synchronization, and it is interesting to note that two- mode oscillations continue to exist outside of the parameter range in which oscillations occur for the individual unit. At low coupling strengths, the multioscillator...... system shows high dimensional quasiperiodicity with little tendency for synchronization. At higher coupling strengths, one typically observes spatial clustering involving a few oscillating units. We describe three different scenarios according to which the cluster can slide along the chain as the bias...

  17. Dynamic properties of one-component strongly coupled plasmas: The sum-rule approach

    International Nuclear Information System (INIS)

    Arkhipov, Yu. V.; Askaruly, A.; Davletov, A. E.; Ballester, D.; Tkachenko, I. M.; Zwicknagel, G.

    2010-01-01

    The dynamic characteristics of strongly coupled one-component plasmas are studied within the moment approach. Our results on the dynamic structure factor and the dynamic local-field correction satisfy the sum rules and other exact relations automatically. A quantitative agreement is obtained with numerous simulation data on the plasma dynamic properties, including the dispersion and decay of collective modes. Our approach allows us to correct and complement the results previously found with other treatments.

  18. Wide dynamic range microwave planar coupled ring resonator for sensing applications

    Science.gov (United States)

    Zarifi, Mohammad Hossein; Daneshmand, Mojgan

    2016-06-01

    A highly sensitive, microwave-coupled ring resonator with a wide dynamic range is studied for use in sensing applications. The resonator's structure has two resonant rings and, consequently, two resonant frequencies, operating at 2.3 and 2.45 GHz. Inductive and capacitive coupling mechanisms are explored and compared to study their sensing performance. Primary finite element analysis and measurement results are used to compare the capacitive and inductive coupled ring resonators, demonstrating sensitivity improvements of up to 75% and dynamic range enhancement up to 100% in the capacitive coupled structure. In this work, we are proposing capacitive coupled planar ring resonators as a wide dynamic range sensing platform for liquid sensing applications. This sensing device is well suited for low-cost, real-time low-power, and CMOS compatible sensing technologies.

  19. One- and two-cluster synchronized dynamics of non-diffusively coupled Tchebycheff map networks

    International Nuclear Information System (INIS)

    Schäfer, Mirko; Greiner, Martin

    2012-01-01

    We use the master stability formalism to discuss one- and two-cluster synchronization of coupled Tchebycheff map networks. For diffusively coupled map systems, the one-cluster synchronized dynamics is given by the behaviour of the individual maps, and the coupling only determines the stability of the coherent state. For the case of non-diffusive coupling and for two-cluster synchronization, the synchronized dynamics on networks is different from the behaviour of the single individual map. Depending on the coupling, we study numerically the characteristics of various forms of the resulting synchronized dynamics. The stability properties of the respective one-cluster synchronized states are discussed for arbitrary network structures. For the case of two-cluster synchronization on bipartite networks we also present analytical expressions for fixed points and zig-zag patterns, and explicitly determine the linear stability of these orbits for the special case of ring-networks.

  20. Development and application of coupled system dynamics and game theory: A dynamic water conflict resolution method.

    Directory of Open Access Journals (Sweden)

    Mehdi Zomorodian

    Full Text Available Conflicts over water resources can be highly dynamic and complex due to the various factors which can affect such systems, including economic, engineering, social, hydrologic, environmental and even political, as well as the inherent uncertainty involved in many of these factors. Furthermore, the conflicting behavior, preferences and goals of stakeholders can often make such conflicts even more challenging. While many game models, both cooperative and non-cooperative, have been suggested to deal with problems over utilizing and sharing water resources, most of these are based on a static viewpoint of demand points during optimization procedures. Moreover, such models are usually developed for a single reservoir system, and so are not really suitable for application to an integrated decision support system involving more than one reservoir. This paper outlines a coupled simulation-optimization modeling method based on a combination of system dynamics (SD and game theory (GT. The method harnesses SD to capture the dynamic behavior of the water system, utilizing feedback loops between the system components in the course of the simulation. In addition, it uses GT concepts, including pure-strategy and mixed-strategy games as well as the Nash Bargaining Solution (NBS method, to find the optimum allocation decisions over available water in the system. To test the capability of the proposed method to resolve multi-reservoir and multi-objective conflicts, two different deterministic simulation-optimization models with increasing levels of complexity were developed for the Langat River basin in Malaysia. The later is a strategic water catchment that has a range of different stakeholders and managerial bodies, which are however willing to cooperate in order to avoid unmet demand. In our first model, all water users play a dynamic pure-strategy game. The second model then adds in dynamic behaviors to reservoirs to factor in inflow uncertainty and adjust the

  1. Development and application of coupled system dynamics and game theory: A dynamic water conflict resolution method.

    Science.gov (United States)

    Zomorodian, Mehdi; Lai, Sai Hin; Homayounfar, Mehran; Ibrahim, Shaliza; Pender, Gareth

    2017-01-01

    Conflicts over water resources can be highly dynamic and complex due to the various factors which can affect such systems, including economic, engineering, social, hydrologic, environmental and even political, as well as the inherent uncertainty involved in many of these factors. Furthermore, the conflicting behavior, preferences and goals of stakeholders can often make such conflicts even more challenging. While many game models, both cooperative and non-cooperative, have been suggested to deal with problems over utilizing and sharing water resources, most of these are based on a static viewpoint of demand points during optimization procedures. Moreover, such models are usually developed for a single reservoir system, and so are not really suitable for application to an integrated decision support system involving more than one reservoir. This paper outlines a coupled simulation-optimization modeling method based on a combination of system dynamics (SD) and game theory (GT). The method harnesses SD to capture the dynamic behavior of the water system, utilizing feedback loops between the system components in the course of the simulation. In addition, it uses GT concepts, including pure-strategy and mixed-strategy games as well as the Nash Bargaining Solution (NBS) method, to find the optimum allocation decisions over available water in the system. To test the capability of the proposed method to resolve multi-reservoir and multi-objective conflicts, two different deterministic simulation-optimization models with increasing levels of complexity were developed for the Langat River basin in Malaysia. The later is a strategic water catchment that has a range of different stakeholders and managerial bodies, which are however willing to cooperate in order to avoid unmet demand. In our first model, all water users play a dynamic pure-strategy game. The second model then adds in dynamic behaviors to reservoirs to factor in inflow uncertainty and adjust the strategies for

  2. Mutation of the α-tubulin Tuba1a leads to straighter microtubules and perturbs neuronal migration

    Science.gov (United States)

    Belvindrah, Richard; Shabajee, Preety; Bruel-Jungerman, Elodie; Bernard, Jennifer; Goutierre, Marie; Moutkine, Imane; Jaglin, Xavier H.; Savariradjane, Mythili; Irinopoulou, Theano; Poncer, Jean-Christophe

    2017-01-01

    Brain development involves extensive migration of neurons. Microtubules (MTs) are key cellular effectors of neuronal displacement that are assembled from α/β-tubulin heterodimers. Mutation of the α-tubulin isotype TUBA1A is associated with cortical malformations in humans. In this study, we provide detailed in vivo and in vitro analyses of Tuba1a mutants. In mice carrying a Tuba1a missense mutation (S140G), neurons accumulate, and glial cells are dispersed along the rostral migratory stream in postnatal and adult brains. Live imaging of Tuba1a-mutant neurons revealed slowed migration and increased neuronal branching, which correlated with directionality alterations and perturbed nucleus–centrosome (N–C) coupling. Tuba1a mutation led to increased straightness of newly polymerized MTs, and structural modeling data suggest a conformational change in the α/β-tubulin heterodimer. We show that Tuba8, another α-tubulin isotype previously associated with cortical malformations, has altered function compared with Tuba1a. Our work shows that Tuba1a plays an essential, noncompensated role in neuronal saltatory migration in vivo and highlights the importance of MT flexibility in N–C coupling and neuronal-branching regulation during neuronal migration. PMID:28687665

  3. Study on the Vehicle Dynamic Load Considering the Vehicle-Pavement Coupled Effect

    Science.gov (United States)

    Xu, H. L.; He, L.; An, D.

    2017-11-01

    The vibration of vehicle-pavement interaction system is sophisticated random vibration process and the vehicle-pavement coupled effect was not considered in the previous study. A new linear elastic model of the vehicle-pavement coupled system was established in the paper. The new model was verified with field measurement which could reflect the real vibration between vehicle and pavement. Using the new model, the study on the vehicle dynamic load considering the vehicle-pavement coupled effect showed that random forces (centralization) between vehicle and pavement were influenced largely by vehicle-pavement coupled effect. Numerical calculation indicated that the maximum of random forces in coupled model was 2.4 times than that in uncoupled model. Inquiring the reason, it was found that the main vibration frequency of the vehicle non-suspension system was similar with that of the vehicle suspension system in the coupled model and the resonance vibration lead to vehicle dynamic load increase significantly.

  4. Dynamic Characteristics of Vertically Coupled Structures and the Design of a Decoupled Micro Gyroscope

    Science.gov (United States)

    Choi, Bumkyoo; Lee, Seung-Yop; Kim, Taekhyun; Baek, Seog Soon

    2008-01-01

    In a vertical type, vibratory gyroscope, the coupled motion between reference (driving) and sensing vibrations causes the zero-point output, which is the unwanted sensing vibration without angular velocity. This structural coupling leads to an inherent discrepancy between the natural frequencies of the reference and the sensing oscillations, causing curve veering in frequency loci. The coupled motion deteriorates sensing performance and dynamic stability. In this paper, the dynamic characteristics associated with the coupling phenomenon are theoretically analyzed. The effects of reference frequency and coupling factor on the rotational direction and amplitude of elliptic oscillation are determined. Based on the analytical studies on the coupling effects, we propose and fabricate a vertically decoupled vibratory gyroscope with the frequency matching. PMID:27879903

  5. Dynamic Characteristics of Vertically Coupled Structures and the Design of a Decoupled Micro Gyroscope.

    Science.gov (United States)

    Choi, Bumkyoo; Lee, Seung-Yop; Kim, Taekhyun; Baek, Seog Soon

    2008-06-03

    In a vertical type, vibratory gyroscope, the coupled motion between reference (driving) and sensing vibrations causes the zero-point output, which is the unwanted sensing vibration without angular velocity. This structural coupling leads to an inherent discrepancy between the natural frequencies of the reference and the sensing oscillations, causing curve veering in frequency loci. The coupled motion deteriorates sensing performance and dynamic stability. In this paper, the dynamic characteristics associated with the coupling phenomenon are theoretically analyzed. The effects of reference frequency and coupling factor on the rotational direction and amplitude of elliptic oscillation are determined. Based on the analytical studies on the coupling effects, we propose and fabricate a vertically decoupled vibratory gyroscope with the frequency matching.

  6. Coupled spin, elastic and charge dynamics in magnetic nanostructures

    NARCIS (Netherlands)

    Kamra, A.

    2015-01-01

    In this Thesis, I address the interaction of magnetic degrees of freedom with charge current and elastic dynamics in hybrid systems composed of magnetic and non-magnetic materials. The objective, invariably, is to control and study spin dynamics using charge and elastic degrees of freedom. In

  7. Dynamical hysteresis and spatial synchronization in coupled non ...

    Indian Academy of Sciences (India)

    ... via mutual synchronization indices reveals that one attractor corresponds to spatially synchronized oscillators, while the other corresponds to desynchronized oscillators. Dynamical hysteresis may thus help to understand critical aspects of the dynamical behavior of complex biological systems, e.g. seizures in the epileptic ...

  8. Complex photonics: Dynamics and applications of delay-coupled semiconductors lasers

    OpenAIRE

    Soriano, Miguel C.; Garcia-Ojalvo, Jordi; Mirasso, Claudio R.; Fischer, Ingo

    2013-01-01

    Complex phenomena in photonics, in particular, dynamical properties of semiconductor lasers due to delayed coupling, are reviewed. Although considered a nuisance for a long time, these phenomena now open interesting perspectives. Semiconductor laser systems represent excellent test beds for the study of nonlinear delay-coupled systems, which are of fundamental relevance in various areas. At the same time delay-coupled lasers provide opportunities for photonic applications. In this review an i...

  9. An investigation of algebraic quantum dynamics for mesoscopic coupled electric circuits with mutual inductance

    International Nuclear Information System (INIS)

    Pahlavani, H.; Kolur, E. Rahmanpour

    2016-01-01

    Based on the electrical charge discreteness, the Hamiltonian operator for the mutual inductance coupled quantum mesoscopic LC circuits has been found. The persistent current on two driven coupled mesoscopic electric pure L circuits (two quantum loops) has been obtained by using algebraic quantum dynamic approach. The influence of the mutual inductance on energy spectrum and quantum fluctuations of the charge and current for two coupled quantum electric mesoscopic LC circuits have been investigated.

  10. Decay of Rabi Oscillations by Dipolar-Coupled Dynamical Spin Environments

    NARCIS (Netherlands)

    Dobrovitski, V.V.; Feiguin, A.E.; Hanson, R.; Awschalom, D.D.

    2009-01-01

    We study the Rabi oscillations decay of a spin decohered by a spin bath whose internal dynamics is caused by dipolar coupling between the bath spins. The form and rate of decay as a function of the intrabath coupling is obtained analytically, and confirmed numerically. The complex form of decay

  11. Lattice dynamics and magneto-elastic coupling in Kondo-insulator YbB12

    International Nuclear Information System (INIS)

    Rybina, A V; Alekseev, P A; Mignot, J M; Nefeodova, E V; Nemkovski, K S; Bewley, R I; Shitsevalova, N Yu; Paderno, Yu B; Iga, F; Takabatake, T

    2007-01-01

    Lattice dynamics and magneto-elastic coupling effects have been studied in the Kondo insulator YbB 12 by means of inelastic neutron scattering. The analysis of the phonon density of states, dispersion, and symmetry properties is presented in connection with a possible magneto-elastic coupling. Manifestation of such effects was found for the phonons corresponding to the vibrations of Yb atoms

  12. Advanced dynamic modeling of three-phase mutually-coupled switched reluctance machine

    NARCIS (Netherlands)

    Dong, J.; Howey, Brock; Danen, Benjamin; Lin, Jianing; Weisheng Jiang, James; Bilgin, Berker; Emadi, Ali

    2018-01-01

    This paper proposes an advanced dynamic modelling approach of the mutually coupled switched reluctance motor (MCSRM) in the dq reference system that can consider saturation, cross-coupling, and spatial harmonics. Different topologies and their operating principles are investigated and an idealized

  13. Coupling dynamic analysis of spacecraft with multiple cylindrical tanks and flexible appendages

    Science.gov (United States)

    Wu, Wen-Jun; Yue, Bao-Zeng; Huang, Hua

    2016-02-01

    This paper is mainly concerned with the coupling dynamic analysis of a complex spacecraft consisting of one main rigid platform, multiple liquid-filled cylindrical tanks, and a number of flexible appendages. Firstly, the carrier potential function equations of liquid in the tanks are deduced according to the wall boundary conditions. Through employing the Fourier-Bessel series expansion method, the dynamic boundaries conditions on a curved free-surface under a low-gravity environment are transformed to general simple differential equations and the rigid-liquid coupled sloshing dynamic state equations of liquid in tanks are obtained. The state vectors of rigid-liquid coupled equations are composed with the modal coordinates of the relative potential function and the modal coordinates of wave height. Based on the Bernoulli-Euler beam theory and the D'Alembert's principle, the rigid-flexible coupled dynamic state equations of flexible appendages are directly derived, and the coordinate transform matrixes of maneuvering flexible appendages are precisely computed as time-varying. Then, the coupling dynamics state equations of the overall system of the spacecraft are modularly built by means of the Lagrange's equations in terms of quasi-coordinates. Lastly, the coupling dynamic performances of a typical complex spacecraft are studied. The availability and reliability of the presented method are also confirmed.

  14. A gene encoding the major beta tubulin of the mitotic spindle in Physarum polycephalum plasmodia

    Energy Technology Data Exchange (ETDEWEB)

    Burland, T.G.; Paul, E.C.A.; Oetliker, M.; Dove, W.F.

    1988-03-01

    The multinucleate plasmodium of Physarum polycephalum is unusual among eucaryotic cells in that it uses tubulins only in mitotic-spindle microtubules; cytoskeletal, flagellar, and centriolar microtubules are absent in this cell type. The authors identified a ..beta..-tubulin cDNA clone, ..beta..105, which is shown to correspond to the transcript of the betC ..beta..-tubulin locus and to encode ..beta..2 tubulin, the ..beta.. tubulin expressed specifically in the plasmodium and used exclusively in the mitotic spindle. Physarum amoebae utilize tubulins in the cytoskeleton, centrioles, and flagella, in addition to the mitotic spindle. Sequence analysis shows that ..beta..2 tubulin is only 83% identical to the two ..beta.. tubulins expressed in amoebae. This compares with 70 to 83% identity between Physarum ..beta..2 tubulin and the ..beta.. tubulins of yeasts, fungi, alga, trypanosome, fruit fly, chicken, and mouse. On the other hand, Physarum ..beta..2 tubulin is no more similar to, for example, Aspergillus ..beta.. tubulins than it is to those of Drosophila melanogaster or mammals. Several eucaryotes express at least one widely diverged ..beta.. tubulin as well as one or more ..beta.. tubulins that conform more closely to a consensus ..beta..-tubulin sequence. The authors suggest that ..beta..-tubulins diverge more when their expression pattern is restricted, especially when this restriction results in their use in fewer functions. This divergence among ..beta.. tubulins could have resulted through neutral drift. For example, exclusive use of Physarum ..beta..2 tubulin in the spindle may have allowed more amino acid substitutions than would be functionally tolerable in the ..beta.. tubulins that are utilized in multiple microtubular organelles. Alternatively, restricted use of ..beta.. tubulins may allow positive selection to operate more freely to refine ..beta..-tubulin function.

  15. Coupled problems in transient fluid and structural dynamics in nuclear engineering

    International Nuclear Information System (INIS)

    Krieg, R.

    1978-01-01

    Some important problems in coupled fluid-structural dynamics which occur in safety investigations of liquid metal fast breeder reactors (LMFBR). light water reactors and nuclear reprocessing plants are discussed and a classification of solution methods is introduced. A distinction is made between the step by step solution procedure, where available computer codes in fluid and structural dynamics are coupled, and advanced simultaneous solution methods, where the coupling is carried out at the level of the fundamental equations. Results presented include the transient deformation of a two-row pin bundle surrounded by an infinite fluid field, vapour explosions in a fluid container and containment distortions due to bubble collapse in the pressure suppression system of a boiling water reactor. A recently developed simultaneous solution method is presented in detail. Here the fluid dynamics (inviscid, incompressible fluid) is described by a singularity method which reduces the three-dimensional fluid dynamics problems to a two-dimensional formulation. In this way the three-dynamics fluid dynamics as well as the structural (shell) dynamics can be described essentially by common unknowns at the fluid-structural interface. The resulting equations for the coupled fluid-structural dynamics are analogous to to the equations of motion of the structural dynamics alone. (author)

  16. Dynamics of nonlinear oscillators with time-varying conjugate coupling

    Indian Academy of Sciences (India)

    1Department of Physics, Central University of Rajasthan, Ajmer 305 817, India. 2The Institute of Mathematical Science, CIT Campus, .... Now, based on the choice of k1 and k2, we consider two cases, (1) C1: both k1 and k2 ... 2.5, coupled systems show multiple transitions between synchronized and unsynchronized states.

  17. Dynamics of coupled field solitons: A collective coordinate approach

    Indian Academy of Sciences (India)

    In this paper we consider a class of systems of two coupled real scalar fields in bidimensional space-time, with the main motivation of studying classical stability of soliton solutions using collective coordinate approach. First, we present the class of systems of the collective coordinate equations which are derived using the ...

  18. Dynamic coupling between heart rate and ventricular repolarisation

    Czech Academy of Sciences Publication Activity Database

    Halámek, Josef; Jurák, Pavel; Villa, M.; Souček, M.; Fráňa, P.; Nykodym, J.; Eisenberger, M.; Leinveber, P.; Vondra, Vlastimil; Somers, V. K.; Kára, T.

    2007-01-01

    Roč. 52, č. 3 (2007), s. 255-263 ISSN 0013-5585 R&D Projects: GA ČR(CZ) GA102/05/0402 Institutional research plan: CEZ:AV0Z20650511 Keywords : QT/RR coupling * transfer function Subject RIV: FS - Medical Facilities ; Equipment Impact factor: 0.593, year: 2007

  19. Dynamics of delayed-coupled chaotic logistic maps: Influence of ...

    Indian Academy of Sciences (India)

    Abstract. We review our recent work on the synchronization of a network of delay- coupled maps, focusing on the interplay of the network topology and the delay times that take into account the finite velocity of propagation of interactions. We assume that the elements of the network are identical (N logistic maps in the regime ...

  20. Dynamics of coupled field solitons: A collective coordinate approach

    Indian Academy of Sciences (India)

    mensional space-time, with the main motivation of studying classical stability of soliton solutions using collective coordinate ... presented in some previous works [1,2] which where motivated by investigations intro- duced in [3,4], ... The collision of coupled field solitons leads to resonance structure depending on the energy ...

  1. Dynamics of coupled mode solitons in bursting neural networks

    Science.gov (United States)

    Nfor, N. Oma; Ghomsi, P. Guemkam; Moukam Kakmeni, F. M.

    2018-02-01

    Using an electrically coupled chain of Hindmarsh-Rose neural models, we analytically derived the nonlinearly coupled complex Ginzburg-Landau equations. This is realized by superimposing the lower and upper cutoff modes of wave propagation and by employing the multiple scale expansions in the semidiscrete approximation. We explore the modified Hirota method to analytically obtain the bright-bright pulse soliton solutions of our nonlinearly coupled equations. With these bright solitons as initial conditions of our numerical scheme, and knowing that electrical signals are the basis of information transfer in the nervous system, it is found that prior to collisions at the boundaries of the network, neural information is purely conveyed by bisolitons at lower cutoff mode. After collision, the bisolitons are completely annihilated and neural information is now relayed by the upper cutoff mode via the propagation of plane waves. It is also shown that the linear gain of the system is inextricably linked to the complex physiological mechanisms of ion mobility, since the speeds and spatial profiles of the coupled nerve impulses vary with the gain. A linear stability analysis performed on the coupled system mainly confirms the instability of plane waves in the neural network, with a glaring example of the transition of weak plane waves into a dark soliton and then static kinks. Numerical simulations have confirmed the annihilation phenomenon subsequent to collision in neural systems. They equally showed that the symmetry breaking of the pulse solution of the system leaves in the network static internal modes, sometime referred to as Goldstone modes.

  2. Not just a time-out: change dynamics of prayer for religious couples in conflict situations.

    Science.gov (United States)

    Butler, M H; Gardner, B C; Bird, M H

    1998-01-01

    For religious couples, the spiritual domain stands alongside biological, psychological, and systemic domains as an influence upon interaction and mechanism for change. A qualitative methodology consisting of structured interviews of religious spouses was used to investigate effects of prayer on couple interaction during conflict. A reliable description of the dynamics of prayer across spouse interviews was extracted by four analysts using a group interpretive procedure. Findings suggest that prayer invokes a couple-God system, which significantly influences couple interaction during conflict. Overall, prayer appears to be a significant "softening" event for religious couples, facilitating reconciliation and problem solving. Prayer 1) invokes an experience of relationship with Deity; 2) deescalates hostile emotions and reduces emotional reactivity; 3) enhances relationship and partner orientation and behavior; 4) facilitates empathy and unbiased perspective; 5) increases self-change focus; and 6) encourages couple responsibility for reconciliation and problem solving. Therapists' support of religious couples' use of prayer as a change mechanism is considered.

  3. Adaptive synchronization of the complex dynamical network with non-derivative and derivative coupling

    Energy Technology Data Exchange (ETDEWEB)

    Xu Yuhua, E-mail: yuhuaxu2004@163.co [College of Information Science and Technology, Donghua University, Shanghai 201620 (China) and Department of Maths, Yunyang Teachers' College, Hubei 442000 (China); Zhou Wuneng, E-mail: wnzhou@163.co [College of Information Science and Technology, Donghua University, Shanghai 201620 (China); Fang Jian' an [College of Information Science and Technology, Donghua University, Shanghai 201620 (China); Sun Wen [School of Mathematics and Information, Yangtze University, Hubei Jingzhou 434023 (China)

    2010-04-05

    This Letter investigates the synchronization of a general complex dynamical network with non-derivative and derivative coupling. Based on LaSalle's invariance principle, adaptive synchronization criteria are obtained. Analytical result shows that under the designed adaptive controllers, a general complex dynamical network with non-derivative and derivative coupling can asymptotically synchronize to a given trajectory, and several useful criteria for synchronization are given. What is more, the coupling matrix is not assumed to be symmetric or irreducible. Finally, simulations results show the method is effective.

  4. Tubulin in vitro, in vivo and in silico

    Science.gov (United States)

    Mershin, Andreas

    Tubulin, microtubules and associated proteins were studied theoretically, computationally and experimentally in vitro and in vivo in order to elucidate the possible role these play in cellular information processing and storage. Use of the electric dipole moment of tubulin as the basis for binary switches (biobits) in nanofabricated circuits was explored with surface plasmon resonance, refractometry and dielectric spectroscopy. The effects of burdening the microtubular cytoskeleton of olfactory associative memory neurons with excess microtubule associated protein TAU in Drosophila fruitflies were determined. To investigate whether tubulin may be used as the substrate for quantum computation as a bioqubit, suggestions for experimental detection of quantum coherence and entanglement among tubulin electric dipole moment states were developed.

  5. Generation of scenarios from calibrated ensemble forecasts with a dynamic ensemble copula coupling approach

    DEFF Research Database (Denmark)

    Ben Bouallègue, Zied; Heppelmann, Tobias; Theis, Susanne E.

    2015-01-01

    . The new approach which preserves the dynamical development of the ensemble members is called dynamic ensemble copula coupling (d-ECC). The ensemble based empirical copulas, ECC and d-ECC, are applied to wind forecasts from the high resolution ensemble system COSMO-DEEPS run operationally at the German...

  6. Dynamic coupling design for nonlinear output agreement and time-varying flow control

    NARCIS (Netherlands)

    Buerger, Mathias; De Persis, Claudio

    This paper studies the problem of output agreement in networks of nonlinear dynamical systems under time-varying disturbances, using dynamic diffusive couplings. Necessary conditions are derived for general networks of nonlinear systems, and these conditions are explicitly interpreted as conditions

  7. Technicolor dynamics corrections to Wt-barb coupling

    International Nuclear Information System (INIS)

    Yue Chongxing; Huang Jinshu; Lu Gongru; Yang Zhengtao

    1998-01-01

    The authors consider the contributions of new gauge bosons to Wt-barb coupling in one generation technicolor (OGTC) model and topcolor assisted multiscale technicolor (TOPCMTC) model. The authors find that the exchange of diagonal extended technicolor (ETC) gauge boson has no contribution to Wt-barb coupling. Using the LEP value of R b , the authors calculate the corrections to the CKM matrix element V tb which arise from the sideways ETC gauge boson in OGTC model and the sideways ETC gauge bosons and color exchange in TOPCMTC model. The authors find that the δV tb is significantly large for a certain set of the parameters of either OGTC model or TOPCMTC model which might be detected in the Fermilab Tevatron Run 3 experiments

  8. Synthesis of Cryptophycin Affinity Labels and Tubulin Labeling

    Science.gov (United States)

    2006-05-01

    100 6.0 447 25.3 aTubulin at 1.5 mg/mL was assembled at 37 °C for 15 min in the presence of PEM buffer, 0.5 mM GTP...cryptophycin-24 (18a-c). They were tested in a tubulin assembly assay, and for their cytotoxicity against MCF7, and MCF7-ADR breast cancer cell lines. The

  9. alpha-Tubulin of Histriculus cavicola (Ciliophora; Hypotrichea).

    Science.gov (United States)

    Pérez-Romero, P; Villalobo, E; Díaz-Ramos, C; Calvo, P; Santos-Rosa, F; Torres, A

    1997-03-01

    An alpha-tubulin gene fragment amplified by PCR from the hypotrichous ciliate Histriculus cavicola has been sequenced. This fragment, 1,182 bp long, contains an in-frame "stop" codon (UAA), which in other hypotrichous species codes for a glutamine residue. The comparison of the alpha-tubulin genes from several ciliates classes have revealed amino acid positions which could serve to distinguish these taxonomic groups.

  10. Dynamics of globally coupled inhibitory neurons with heterogeneity

    Science.gov (United States)

    Golomb, David; Rinzel, John

    1993-12-01

    A model of many heterogeneous excitable neurons with a global slowly decaying inhibitory coupling is studied. When neuronal intrinsic excitability parameters are randomly distributed, the system exhibits four regimes of behavior. In addition to synchronized periodic and asynchronous regimes, we obtain two aperiodic regimes, with bursting rate a staircaselike function of neuron excitability. In one regime, the system is partially synchronized and in the second, partially antisynchronized. The transition between these two regimes is discontinuous as the disorder increases.

  11. Observer-based synchronization in complex dynamical networks with nonsymmetric coupling

    Science.gov (United States)

    Wu, Jianshe; Jiao, Licheng

    2007-12-01

    Based on a general complex dynamical network model with nonsymmetric coupling, some criteria for synchronization are proposed based on the approach of state observer design. Unlike the nonobserver-based dynamical networks, where the coupling between two connected nodes is defined by an inner coupling matrix and full state coupling is typically needed, in this paper, smaller amount of coupling variables or even only a scalar output signal of each node is needed to synchronize the network. Unlike the commonly researched complex network model, where the coupling between nodes is symmetric, here, in our network model, the coupling configuration matrix is not assumed to be symmetric and may have complex eigenvalues. The matrix Jordan canonical formalization method is used instead of the matrix diagonalization method, so in our synchronization criteria, the coupling configuration matrix is not required to be diagonalizable. Especially, the proposed step-by-step approach is simpler in computation than the existent ones, which usually rely heavily on numerical toolbox, and may be done by hand completely. An example is given to illustrate the step-by-step approach, in which each node is a two-dimensional dynamical limit cycle oscillator system consisting of a two-cell cellular neural network, and numerical simulations are also done to verify the results of design.

  12. Vortex dynamics in coherently coupled Bose-Einstein condensates

    Science.gov (United States)

    Calderaro, Luca; Fetter, Alexander L.; Massignan, Pietro; Wittek, Peter

    2017-02-01

    In classical hydrodynamics with uniform density, vortices move with the local fluid velocity. This description is rewritten in terms of forces arising from the interaction with other vortices. Two such positive straight vortices experience a repulsive interaction and precess in a positive (anticlockwise) sense around their common centroid. A similar picture applies to vortices in a two-component, two-dimensional uniform Bose-Einstein condensate (BEC) coherently coupled through rf Rabi fields. Unlike the classical case, however, the rf Rabi coupling induces an attractive interaction and two such vortices with positive signs now rotate in the negative (clockwise) sense. Pairs of counter-rotating vortices are instead found to translate with uniform velocity perpendicular to the line joining their cores. This picture is extended to a single vortex in a two-component trapped BEC. Although two uniform vortex-free components experience familiar Rabi oscillations of particle-number difference, such behavior is absent for a vortex in one component because of the nonuniform vortex phase. Instead the coherent Rabi coupling induces a periodic vorticity transfer between the two components.

  13. Dynamic Control of Plasmon-Exciton Coupling in Au Nanodisk–J-Aggregate Hybrid Nanostructure Arrays

    KAUST Repository

    Zheng, Yue Bing

    2009-01-01

    We report the dynamic control of plasmon-exciton coupling in Au nanodisk arrays adsorbed with J-aggregate molecules by incident angle of light. The angle-resolved spectra of an array of bare Au nanodisks exhibit continuous shifting of localized surface plasmon resonances. This characteristic enables the production of real-time, controllable spectral overlaps between molecular and plasmonic resonances, and the efficient measurement of plasmon-exciton coupling as a function of wavelength with one or fewer nanodisk arrays. Experimental observations of varying plasmon-exciton coupling match with coupled dipole approximation calculations.

  14. Strange attractors and synchronization dynamics of coupled Van der Pol-Duffing oscillators

    International Nuclear Information System (INIS)

    Yamapi, R.; Filatrella, G.

    2006-07-01

    We consider in this paper the dynamics and synchronization of coupled chaotic Van der Pol-Duffing systems. The stability of the synchronization process between two coupled autonomous Van der Pol model is first analyzed analytically and numerically, before following the problem of synchronizing chaos both on the same and different chaotic orbits of two coupled Van der Pol-Duffing systems. The stability boundaries of the synchronization process are derived and the effects of the amplitude of the periodic perturbation of the coupling parameter on these boundaries are analyzed. The results are provided on the stability map in the (q, K) plane. (author)

  15. Mechanism of Catalytic Microtubule Depolymerization via KIF2-Tubulin Transitional Conformation

    Directory of Open Access Journals (Sweden)

    Tadayuki Ogawa

    2017-09-01

    Full Text Available Microtubules (MTs are dynamic structures that are fundamental for cell morphogenesis and motility. MT-associated motors work efficiently to perform their functions. Unlike other motile kinesins, KIF2 catalytically depolymerizes MTs from the peeled protofilament end during ATP hydrolysis. However, the detailed mechanism by which KIF2 drives processive MT depolymerization remains unknown. To elucidate the catalytic mechanism, the transitional KIF2-tubulin complex during MT depolymerization was analyzed through multiple methods, including atomic force microscopy, size-exclusion chromatography, multi-angle light scattering, small-angle X-ray scattering, analytical ultracentrifugation, and mass spectrometry. The analyses outlined the conformation in which one KIF2core domain binds tightly to two tubulin dimers in the middle pre-hydrolysis state during ATP hydrolysis, a process critical for catalytic MT depolymerization. The X-ray crystallographic structure of the KIF2core domain displays the activated conformation that sustains the large KIF2-tubulin 1:2 complex.

  16. Cluster dynamics modelling of materials: A new hybrid deterministic/stochastic coupling approach

    Science.gov (United States)

    Terrier, Pierre; Athènes, Manuel; Jourdan, Thomas; Adjanor, Gilles; Stoltz, Gabriel

    2017-12-01

    Deterministic simulations of the rate equations governing cluster dynamics in materials are limited by the number of equations to integrate. Stochastic simulations are limited by the high frequency of certain events. We propose a coupling method combining deterministic and stochastic approaches. It allows handling different time scale phenomena for cluster dynamics. This method, based on a splitting of the dynamics, is generic and we highlight two different hybrid deterministic/stochastic methods. These coupling schemes are highly parallelizable and specifically designed to treat large size cluster problems. The proof of concept is made on a simple model of vacancy clustering under thermal ageing.

  17. Tandem strip mill's multi-parameter coupling dynamic modeling based on the thickness control

    Science.gov (United States)

    Peng, Yan; Zhang, Yang; Sun, Jianliang; Zang, Yong

    2015-03-01

    The rolling process is determined by the interaction of a number of different movements, during which the relative movement occurs between the vibrating roll system and the rolled piece, and the roll system's vibration interacts with the strip's deformation and rigid movement. So many parameters being involved leads to a complex mechanism of this coupling effect. Through testing and analyzing the vibration signals of the mill in the rolling process, the rolling mill's coupled model is established with comprehensive consideration of the coupling interaction between the mill's vertical vibration, its torsional vibration and the working roll's horizontal vibration, and vibration characteristics of different forms of rolling mill's vibration are analyzed under the coupling effect. With comprehensive attention to the relationship between the roll system, the moving strip and the rolling parameters' dynamic properties, and also from the strip thickness control point of view, further research is done on the coupling mechanism between the roll system's movement and the moving strip's characteristics in the rolling process. As a result, the law of inertial coupling and the stiffness coupling effect caused by different forms of the roll system's vibration is determined and the existence of nonlinear characteristics caused by the elastic deformation of moving strip is also found. Furthermore, a multi-parameter coupling-dynamic model is established which takes the tandem strip mill as its research object by making a detailed kinematics analysis of the roll system and using the principle of virtual work. The coupling-dynamic model proposes the instruction to describe the roll system's movement, and analyzes its dynamic response and working stability, and provides a theoretical basis for the realization of the strip thickness' dynamic control.

  18. Dyadic dynamics of perceived social support in couples facing infertility.

    Science.gov (United States)

    Martins, M V; Peterson, B D; Almeida, V; Mesquita-Guimarães, J; Costa, M E

    2014-01-01

    Is perceived social support from partner, family, and friends associated with increased infertility-related stress? While men's perceived support did not seem to influence their partners' stress, women's perceptions of spousal and familial support can affect the way men deal with the challenge of infertility. Previous studies showed that low levels of social support are associated with poor psychosocial adjustment and treatment termination in women and men. Studies examining the impact of social support using the couple as unit of analysis are lacking. A cross-sectional sample of 613 Portuguese patients participated in the research, online over a 3-month period, and in a public fertility clinic over 11 months. The final sample comprised 213 married or cohabiting couples (191 from the fertility clinic) who were actively attempting to have a child, were seeking infertility treatment and had not undergone previous preimplantation genetic diagnosis. Perceived social support was assessed through the Multidimensional Scale of Perceived Social Support and infertility-related stress was assessed with the fertility problem inventory. Hypotheses were tested by applying the actor-partner interdependence model using structural equation modeling. Couples had been living together for an average (±SD) of 6 ± 3.5 years, and attempting a pregnancy for 3.8 ± 2.6 years. Nearly half of the couples had undergone infertility treatment (41.3%). Infertility stress was found to be associated with low family support for women (β = -0.27, P = .003), and low partner support for both men (β = -0.29, P = .001) and women (β = -0.45, P = .006). Both women and men's perceived friend support were not significantly related to male or female infertility stress. Men infertility stress was also associated with their partners low levels of partner (β = -0.24, P = .049) and family support (β = -0.23, P perception of infertility-specific supportive behaviors was not assessed and differential

  19. Tubulin polymerization-stimulating activity of Ganoderma triterpenoids.

    Science.gov (United States)

    Kohno, Toshitaka; Hai-Bang, Tran; Zhu, Qinchang; Amen, Yhiya; Sakamoto, Seiichi; Tanaka, Hiroyuki; Morimoto, Satoshi; Shimizu, Kuniyoshi

    2017-04-01

    Tubulin polymerization is an important target for anticancer therapies. Even though the potential of Ganoderma triterpenoids against various cancer targets had been well documented, studies on their tubulin polymerization-stimulating activity are scarce. This study was conducted to evaluate the effect of Ganoderma triterpenoids on tubulin polymerization. A total of twenty-four compounds were investigated using an in vitro tubulin polymerization assay. Results showed that most of the studied triterpenoids exhibited microtuble-stabilizing activity to different degrees. Among the investigated compounds, ganoderic acid T-Q, ganoderiol F, ganoderic acid S, ganodermanontriol and ganoderic acid TR were found to have the highest activities. A structure-activity relationship (SAR) analysis was performed. Extensive investigation of the SAR suggests the favorable structural features for the tubulin polymerization-stimulating activity of lanostane triterpenes. These findings would be helpful for further studies on the potential mechanisms of the anticancer activity of Ganoderma triterpenoids and give some indications on the design of tubulin-targeting anticancer agents.

  20. Quantum fluctuation of electronic wave-packet dynamics coupled with classical nuclear motions.

    Science.gov (United States)

    Amano, Michiko; Takatsuka, Kazuo

    2005-02-22

    An ab initio electronic wave-packet dynamics coupled with the simultaneous classical dynamics of nuclear motions in a molecule is studied. We first survey the dynamical equations of motion for the individual components. Reflecting the nonadiabatic dynamics that electrons can respond to nuclear motions only with a finite speed, the equations of motion for nuclei include a force arising from the kinematic (nuclear momentum) coupling from electron cloud. To materialize these quantum effects in the actual ab initio calculations, we study practical implementation of relevant electronic matrix elements that are related to the derivatives with respect to the nuclear coordinates. Applications of the present scheme are performed in terms of the configuration state functions (CSF) using the canonical molecular orbitals as basis functions without transformation to particular diabatic basis. In the CSF representation, the nonadiabatic interaction due to the kinematic coupling is anticipated to be rather small, and instead it should be well taken into account through the off-diagonal elements of the electronic Hamiltonian matrix. Therefore it is expected that the nonadiabatic dynamics based on this CSF basis neglecting the kinematic coupling may work. To verify this anticipation and to quantify the actual effects of the kinematic coupling, we compare the dynamics with and without the kinematic-coupling terms using the same CSF set. Applications up to the fifth electronically excited states in a nonadiabatic collision between H(2) and B(+) shows that the overall behaviors of these two calculations are surprisingly similar to each other in an average sense except for a fast fluctuation reflecting the electronic time scale. However, at the same time, qualitative differences in the collision events are sometimes observed. Therefore it turns out after all that the kinematic-coupling terms cannot be neglected in the CSF-basis representation. The present applications also demonstrate

  1. Dynamics of a SQUID ratchet coupled to a nanomechanical resonator

    NARCIS (Netherlands)

    Pugnetti, S.; Blanter, Y.M.; Dolcini, F.; Fazio, R.

    2009-01-01

    We investigate the dynamics of a superconducting rectifying circuit, namely, a three-junction superconducting quantum interference device (SQUID), where one arm of the superconducting loop consists of a nanomechanical resonator. We find that the dc characteristic curve of the system displays

  2. Effect of strong coupling on interfacial electron transfer dynamics in ...

    Indian Academy of Sciences (India)

    Unknown

    Radiation & Photochemistry Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400 085 e-mail: hnghosh@barc.gov.in. Abstract. Dynamics of interfacial electron transfer (ET) in ruthenium ..... As the localization takes place mostly on bpy-cat ligand, ILET process does not interfere much in the electron injection ...

  3. Coupled Numerical Methods to Analyze Interacting Acoustic-Dynamic Models by Multidomain Decomposition Techniques

    Directory of Open Access Journals (Sweden)

    Delfim Soares

    2011-01-01

    Full Text Available In this work, coupled numerical analysis of interacting acoustic and dynamic models is focused. In this context, several numerical methods, such as the finite difference method, the finite element method, the boundary element method, meshless methods, and so forth, are considered to model each subdomain of the coupled model, and multidomain decomposition techniques are applied to deal with the coupling relations. Two basic coupling algorithms are discussed here, namely the explicit direct coupling approach and the implicit iterative coupling approach, which are formulated based on explicit/implicit time-marching techniques. Completely independent spatial and temporal discretizations among the interacting subdomains are permitted, allowing optimal discretization for each sub-domain of the model to be considered. At the end of the paper, numerical results are presented, illustrating the performance and potentialities of the discussed methodologies.

  4. Status of the coupled fluid-structure dynamics code SEURBNUK

    International Nuclear Information System (INIS)

    Smith, B.L.; Yerkess, A.; Adamson, J.

    1983-07-01

    The computer code SEURBNUK-2 is used collaboratively for the study of fast reactor containment integrity. Continuous extension and improvement of the numerical modelling has been required to match the performance of the code against the COVA series of scale model experiments and the requirements of reactor safety analysis. The present capabilities of SEURBNUK-2 are outlined and the most recent development topics are summarised. For internal structures amenable to thin shell treatment, a recent addition to the code permits these to be perforated, which is useful in modelling dip-plates and above-core structures in the reactor. In safety analysis much attention is paid to the response of the roof structure to impact loading from a rising coolant slug. The typical relationship between duration of the loading and the natural period of the roof shows that a coupled fluid/structure analysis is required. This must include the roof hold-down device which can introduce a low frequency component that considerably modifies the response of the closure system. A recent major extension to the SEURBNUK modelling is the installation of a moving roof option which, together with development of the logic to link structures external to the containment vessel, provides such coupling. (Auth.)

  5. Frequency Splitting Elimination and Cross-Coupling Rejection of Wireless Power Transfer to Multiple Dynamic Receivers

    Directory of Open Access Journals (Sweden)

    Narayanamoorthi R.

    2018-01-01

    Full Text Available Simultaneous power transfer to multiple receiver (Rx system is one of the key advantages of wireless power transfer (WPT system using magnetic resonance. However, determining the optimal condition to uniformly transfer the power to a selected Rx at high efficiency is the challenging task under the dynamic environment. The cross-coupling and frequency splitting are the dominant issues present in the multiple Rx dynamic WPT system. The existing analysis is performed by considering any one issue present in the system; on the other hand, the cross coupling and frequency splitting issues are interrelated in dynamic Rx’s, which requires a comprehensive design strategy by considering both the problems. This paper proposes an optimal design of multiple Rx WPT system, which can eliminate cross coupling, frequency splitting issues and increase the power transfer efficiency (PTE of selected Rx. The cross-coupling rejection, uniform power transfer is performed by adding an additional relay coil and independent resonance frequency tuning with capacitive compensation to each Rx unit. The frequency splitting phenomena are eliminated using non-identical transmitter (Tx and Rx coil structure which can maintain the coupling between the coil under the critical coupling limit. The mathematical analysis of the compensation capacitance calculation and optimal Tx coil size identification is performed for the four Rx WPT system. Finite element analysis and experimental investigation are carried out for the proposed design in static and dynamic conditions.

  6. Dynamics of beam pair coupled by visco-elastic interlayer

    Czech Academy of Sciences Publication Activity Database

    Náprstek, Jiří; Hračov, Stanislav

    2015-01-01

    Roč. 9, č. 2 (2015), s. 127-140 ISSN 1802-680X R&D Projects: GA ČR(CZ) GP13-41574P; GA ČR(CZ) GA15-01035S Institutional support: RVO:68378297 Keywords : double-beam dynamics * visco-elastic interlayer * kinematic damping Subject RIV: JM - Building Engineering http://www.kme.zcu.cz/acm/acm/article/view/292

  7. Dynamics modeling for a rigid-flexible coupling system with nonlinear deformation field

    International Nuclear Information System (INIS)

    Deng Fengyan; He Xingsuo; Li Liang; Zhang Juan

    2007-01-01

    In this paper, a moving flexible beam, which incorporates the effect of the geometrically nonlinear kinematics of deformation, is investigated. Considering the second-order coupling terms of deformation in the longitudinal and transverse deflections, the exact nonlinear strain-displacement relations for a beam element are described. The shear strains formulated by the present modeling method in this paper are zero, so it is reasonable to use geometrically nonlinear deformation fields to demonstrate and simplify a flexible beam undergoing large overall motions. Then, considering the coupling terms of deformation in two dimensions, finite element shape functions of a beam element and Lagrange's equations are employed for deriving the coupling dynamical formulations. The complete expression of the stiffness matrix and all coupling terms are included in the formulations. A model consisting of a rotating planar flexible beam is presented. Then the frequency and dynamical response are studied, and the differences among the zero-order model, first-order coupling model and the new present model are discussed. Numerical examples demonstrate that a 'stiffening beam' can be obtained, when more coupling terms of deformation are added to the longitudinal and transverse deformation field. It is shown that the traditional zero-order and first-order coupling models may not provide an exact dynamic model in some cases

  8. Phase-dependent dynamic potential of magnetically coupled two-degree-of-freedom bistable energy harvester.

    Science.gov (United States)

    Kim, Pilkee; Nguyen, Minh Sang; Kwon, Ojin; Kim, Young-Jin; Yoon, Yong-Jin

    2016-09-28

    A system of magnetically coupled oscillators has been recently considered as a promising compact structure to integrate multiple bistable energy harvesters (BEHs), but its design is not straightforward owing to its varying potential energy pattern, which has not been understood completely yet. This study introduces the concept of phase-dependent dynamic potential in a magnetically coupled BEH system with two degrees of freedom (DOFs) to explain the underlying principle of the complicated dynamics of the system. Through theoretical simulations and analyses, two distinct dynamic regimes, called the out-of-phase and in-phase mode regimes in this report, are found to exist in the frequency regions of the 1 st and 2 nd primary intrawell resonances. For the out-of-phase mode regime, the frequency displacement (and output power) responses of the 2-DOF BEH system exhibit typical double-well dynamics, whereas for the in-phase mode regime, only single-well dynamics is observed though the system is statically bistable. These dynamic regimes are also revealed to be caused by the difference in the dynamic potential energy trajectories propagating on a high-dimensional potential energy surface. The present approach to the dynamics of the 2-DOF BEH system can be extended and applied to higher-DOF systems, which sheds light on compact and efficient designs of magnetically coupled BEH chain structures.

  9. Nonequilibrium molecular dynamics simulation of coupling between nanoparticles and base-fluid in a nanofluid

    International Nuclear Information System (INIS)

    Kang, Hongbo; Zhang, Yuwen; Yang, Mo; Li, Ling

    2012-01-01

    The intent of this study is to examine nonequilibrium heat transfer in a copper–argon nanofluid by molecular dynamics simulation. Two different methods, the physical definition method and the curve fitting method, are introduced to calculate the coupling factor between nanoparticles and base fluid. The results show that the coupling factors obtained by these two methods are consistent. The coupling factor is proportional to the volume fraction of the nanoparticle and inversely proportional to nanoparticle diameter. In the temperature range of 90–200 K, the coupling factor is not affected by temperature. The nanoparticle aggregation results in a decrease of the coupling factor. -- Highlights: ► Nonequilibrium heat transfer in a copper–argon nanofluid is investigated by molecular dynamics simulation. ► The coupling factor is proportion to the volume fraction of the nanoparticle and inverse proportion to nanoparticle diameter. ► In the temperature range of 90–200 K, there is no temperature effect on the coupling factor. ► The nanoparticle aggregation results in a decrease of the coupling factor.

  10. Coupling dynamics and chemistry in the air pollution modelling of street canyons: A review.

    Science.gov (United States)

    Zhong, Jian; Cai, Xiao-Ming; Bloss, William James

    2016-07-01

    Air pollutants emitted from vehicles in street canyons may be reactive, undergoing mixing and chemical processing before escaping into the overlying atmosphere. The deterioration of air quality in street canyons occurs due to combined effects of proximate emission sources, dynamical processes (reduced dispersion) and chemical processes (evolution of reactive primary and formation of secondary pollutants). The coupling between dynamics and chemistry plays a major role in determining street canyon air quality, and numerical model approaches to represent this coupling are reviewed in this article. Dynamical processes can be represented by Computational Fluid Dynamics (CFD) techniques. The choice of CFD approach (mainly the Reynolds-Averaged Navier-Stokes (RANS) and Large-Eddy Simulation (LES) models) depends on the computational cost, the accuracy required and hence the application. Simplified parameterisations of the overall integrated effect of dynamics in street canyons provide capability to handle relatively complex chemistry in practical applications. Chemical processes are represented by a chemical mechanism, which describes mathematically the chemical removal and formation of primary and secondary species. Coupling between these aspects needs to accommodate transport, dispersion and chemical reactions for reactive pollutants, especially fast chemical reactions with time scales comparable to or shorter than those of typical turbulent eddies inside the street canyon. Different approaches to dynamical and chemical coupling have varying strengths, costs and levels of accuracy, which must be considered in their use for provision of reference information concerning urban canopy air pollution to stakeholders considering traffic and urban planning policies. Copyright © 2016 Elsevier Ltd. All rights reserved.

  11. External control of the synchronization dynamics of two inductively coupled glow discharge plasma sources

    Science.gov (United States)

    Chaubey, Neeraj; Mukherjee, S.; Sen, A.

    2017-10-01

    An experimental investigation of the influence of an external periodic forcing on the synchronization dynamics of two inductively coupled plasma sources is reported. The driven response of the coupled system is found to have a rich structure in the parameter space of the frequency and the amplitude of the external driver. In particular, there is a strong impact on the nature of the phase-flip transitions between anti-phase and in-phase synchronized states of the system and the frequency bifurcation structure of the collective states. The external driver provides a convenient tool for accessing various collective states of the system and controlling the collective dynamics of the two coupled systems through a proper choice of its frequency and amplitude. Our experimental results are qualitatively supported by numerical simulation results from a theoretical model of two environmentally coupled van der Pol equations, one of which is also driven externally.

  12. SHARC: ab Initio Molecular Dynamics with Surface Hopping in the Adiabatic Representation Including Arbitrary Couplings.

    Science.gov (United States)

    Richter, Martin; Marquetand, Philipp; González-Vázquez, Jesús; Sola, Ignacio; González, Leticia

    2011-05-10

    We present a semiclassical surface-hopping method which is able to treat arbitrary couplings in molecular systems including all degrees of freedom. A reformulation of the standard surface-hopping scheme in terms of a unitary transformation matrix allows for the description of interactions like spin-orbit coupling or transitions induced by laser fields. The accuracy of our method is demonstrated in two systems. The first one, consisting of two model electronic states, validates the semiclassical approach in the presence of an electric field. In the second one, the dynamics in the IBr molecule in the presence of spin-orbit coupling after laser excitation is investigated. Due to an avoided crossing that originates from spin-orbit coupling, IBr dissociates into two channels: I + Br((2)P3/2) and I + Br*((2)P1/2). In both systems, the obtained results are in very good agreement with those calculated from exact quantum dynamical simulations.

  13. On non-linear dynamics of a coupled electro-mechanical system

    DEFF Research Database (Denmark)

    Darula, Radoslav; Sorokin, Sergey

    2012-01-01

    , for mechanical system, is of the second order. The governing equations are coupled via linear and weakly non-linear terms. A classical perturbation method, a method of multiple scales, is used to find a steadystate response of the electro-mechanical system exposed to a harmonic close-resonance mechanical......Electro-mechanical devices are an example of coupled multi-disciplinary weakly non-linear systems. Dynamics of such systems is described in this paper by means of two mutually coupled differential equations. The first one, describing an electrical system, is of the first order and the second one...... excitation. The results are verified using a numerical model created in MATLAB Simulink environment. Effect of non-linear terms on dynamical response of the coupled system is investigated; the backbone and envelope curves are analyzed. The two phenomena, which exist in the electro-mechanical system: (a...

  14. A deficit in zinc availability can cause alterations in tubulin thiol redox status in cultured neurons and in the developing fetal rat brain.

    Science.gov (United States)

    Mackenzie, Gerardo G; Salvador, Gabriela A; Romero, Carolina; Keen, Carl L; Oteiza, Patricia I

    2011-07-15

    Zinc (Zn) deficiency during early development can result in multiple brain abnormalities and altered neuronal functions. In rats, a gestational deficit of Zn can affect the fetal brain cytoskeleton and signaling cascades involved in cellular processes that are central to brain development. In this paper, we tested the hypothesis that oxidative stress is involved in Zn deficiency-induced altered tubulin dynamics and the associated dysregulation of transcription factor NF-κB. For this purpose, we used two cell culture models (rat cortical neurons, human IMR-32 neuroblastoma cells) and an animal model of Zn deficiency. A low rate of in vitro tubulin polymerization, an increase in tubulin oligomers, and a higher protein cysteine oxidation were observed in the Zn-deficient neuronal cells and in gestation day 19 fetal brains obtained from dams fed marginal-Zn diets throughout pregnancy. These alterations could be prevented by treating the Zn-deficient cells with the reducing agent tris(2-carboxyethyl)phosphine or by the presence of N-acetylcysteine (NAC) and α-lipoic acid (LA). Consistent with the above, Zn deficiency-induced tubulin-mediated alterations in transcription factor NF-κB nuclear translocation were prevented by treating IMR-32 cells with LA and NAC. Binding of the NF-κB protein p50, dynein, and karyopherin α (components of the NF-κB transport complex) to β-tubulin as well as the expression of NF-κB-dependent genes (Bcl-2, cyclin D1, and c-myc) was also restored by the addition of LA and NAC to Zn-deficient cells. In conclusion, a deficit in Zn viability could affect early brain development through: (1) an induction of oxidative stress, (2) tubulin oxidation, (3) altered tubulin dynamics, and (4) deregulation of signals (e.g., NF-κB) involved in critical developmental events. Copyright © 2011 Elsevier Inc. All rights reserved.

  15. Dynamically tunable implementation of electromagnetically induced transparency with two coupling graphene-nanostrips in terahertz region

    Science.gov (United States)

    Shu, Chang; Chen, Qing-Guo; Mei, Jin-Shuo; Yin, Jing-Hua

    2018-03-01

    In this paper, we numerically demonstrated a dynamically tunable implementation of electromagnetically induced transparency (EIT) response with two coupling graphene-nanostrips in terahertz region. Compared to the metal-based structures or separated graphene structures, the Fermi energies of proposed two coupling graphene-nanostrips can be independently tuned by changing bias voltage between the metallic pads and substrate, the EIT window which appears from the near-field coupling between two resonators can be dynamically tuned without reoptimizing and refabricating the structures. As a result, the EIT window has a significant tunable capacity which can realize a higher frequency modulation depth and control the amplitude of transmission peak at a fixed frequency; moreover, the group delay of transmission peak at a fixed frequency with the amplitude of over 0.95 could be dynamically tuned. These results would exhibit potential applications in modulators and tunable slow light devices.

  16. Magnetic hysteresis and domain wall dynamics in single chain magnets with antiferromagnetic interchain coupling

    Energy Technology Data Exchange (ETDEWEB)

    Bukharov, A A; Ovchinnikov, A S; Baranov, N V [Department of Physics, Ural State University, Ekaterinburg, 620083 (Russian Federation); Inoue, K [Institute for Advanced Materials Research, Hiroshima University, Hiroshima (Japan)

    2010-11-03

    Using Monte Carlo simulations we investigate magnetic hysteresis in two- and three-dimensional systems of weakly antiferromagnetically coupled spin chains based on a scenario of domain wall (kink) motion within the chains. By adapting the model of walkers to simulate the domain wall dynamics and using the Ising-like dipole-dipole model, we study the effects of interchain coupling, temperature and anisotropy axis direction on hysteresis curves.

  17. Rigid-flexible coupling dynamics of three-dimensional hub-beams system

    International Nuclear Information System (INIS)

    Liu Jinyang; Lu Hao

    2007-01-01

    In the previous research of the coupling dynamics of a hub-beam system, coupling between the rotational motion of hub and the torsion deformation of beam is not taken into account since the system undergoes planar motion. Due to the small longitudinal deformation, coupling between the rotational motion of hub and the longitudinal deformation of beam is also neglected. In this paper, rigid-flexible coupling dynamics is extended to a hub-beams system with three-dimensional large overall motion. Not only coupling between the large overall motion and the bending deformation, but also coupling between the large overall motion and the torsional deformation are taken into account. In case of temperature increase, the longitudinal deformation caused by the thermal expansion is significant, such that coupling between the large overall motion and the longitudinal deformation is also investigated. Combining the characteristics of the hybrid coordinate formulation and the absolute nodal coordinate formulation, the system generalized coordinates include the relative nodal displacement and the slope of each beam element with respect to the body-fixed frame of the hub, and the variables related to the spatial large overall motion of the hub and beams. Based on precise strain-displacement relation, the geometric stiffening effect is taken into account, and the rigid-flexible coupling dynamic equations are derived using velocity variational principle. Finite element method is employed for discretization. Simulation of a hub-beams system is used to show the coupling effect between the large overall motion and the torsional deformation as well as the longitudinal deformation. Furthermore, conservation of energy in case of free motion is shown to verify the formulation

  18. Microscopic Theory of Coupled Slow Activated Dynamics in Glass-Forming Binary Mixtures.

    Science.gov (United States)

    Zhang, Rui; Schweizer, Kenneth S

    2018-04-05

    The Elastically Collective Nonlinear Langevin Equation theory for one-component viscous liquids and suspensions is generalized to treat coupled slow activated relaxation and diffusion in glass-forming binary sphere mixtures of any composition, size ratio, and interparticle interactions. A trajectory-level dynamical coupling parameter concept is introduced to construct two coupled dynamic free energy functions for the smaller penetrant and larger matrix particle. A two-step dynamical picture is proposed where the first-step process involves matrix-facilitated penetrant hopping quantified in a self-consistent manner based on a temporal coincidence condition. After penetrants dynamically equilibrate, the effectively one-component matrix particle dynamics is controlled by a new dynamic free energy (second-step process). Depending on the time scales associated with the first- and second-step processes, as well as the extent of matrix-correlated facilitation, distinct physical scenarios are predicted. The theory is implemented for purely hard-core interactions, and addresses the glass transition based on variable kinetic criteria, penetrant-matrix coupled activated relaxation, self-diffusion of both species, dynamic fragility, and shear elasticity. Testable predictions are made. Motivated by the analytic ultralocal limit idea derived for pure hard sphere fluids, we identify structure-thermodynamics-dynamics relationships. As a case study for molecule-polymer thermal mixtures, the chemically matched fully miscible polystyrene-toluene system is quantitatively studied based on a predictive mapping scheme. The resulting no-adjustable-parameter results for toluene diffusivity and the mixture glass transition temperature are in good agreement with experiment. The theory provides a foundation to treat diverse dynamical problems in glass-forming mixtures, including suspensions of colloids and nanoparticles, polymer-molecule liquids, and polymer nanocomposites.

  19. Anomalous weak boson couplings suggestions from unitarity and dynamics

    CERN Document Server

    Gounaris, G.J.; Tsirigoti, G.; Gounaris, G J; Renard, F M; Tsirigoti, G

    1995-01-01

    Taking into account the constraints from LEP1 and lower energy experiments, we identify the seven SU(2)\\times U(1) gauge invariant purely bosonic dim=6 operators which provide a quite general description of how New Physics could reflect in the bosonic world, if it happens that all new degrees of freedom are too heavy to be directly produced in the future colliders. Five of these operators are CP conserving and the remaining ones are CP violating. We derive the unitarity constraints for the CP violating operators and compare them with the already known constraints for the CP conserving ones. Dynamical renormalizable models are also presented, which partly elucidate what the appearance of each of these operators can teach us on the mechanism of spontaneous gauge symmetry breaking.

  20. Vector Rotators of Rigid Body Dynamics with Coupled Rotations around Axes without Intersection

    Directory of Open Access Journals (Sweden)

    Katica R. (Stevanović Hedrih

    2011-01-01

    Full Text Available Vector method based on mass moment vectors and vector rotators coupled for pole and oriented axes is used for obtaining vector expressions for kinetic pressures on the shaft bearings of a rigid body dynamics with coupled rotations around axes without intersection. Mass inertia moment vectors and corresponding deviational vector components for pole and oriented axis are defined by K. Hedrih in 1991. These kinematical vectors rotators are defined for a system with two degrees of freedom as well as for rheonomic system with two degrees of mobility and one degree of freedom and coupled rotations around two coupled axes without intersection as well as their angular velocities and intensity. As an example of defined dynamics, we take into consideration a heavy gyrorotor disk with one degree of freedom and coupled rotations when one component of rotation is programmed by constant angular velocity. For this system with nonlinear dynamics, a series of tree parametric transformations of system nonlinear dynamics are presented. Some graphical visualization of vector rotators properties are presented too.

  1. Investigating Margin and Grounding Line Dynamics with a Coupled Ice and Sea Level Model

    Science.gov (United States)

    Kuchar, J.; Milne, G. A.

    2017-12-01

    We present results from the coupling of an adaptive mesh glaciological model (BISICLES) with a model of glacial isostatic adjustment and sea level. We apply this coupled model to study the deglaciation of the Greenland Ice Sheet (GrIS) from the last glacial maximum. The proximity of the GrIS to the much larger Laurentide results in an east-west gradient in sea level rates across Greenland during the deglaciation. We investigate the impacts of this sea level gradient on ice and grounding line dynamics at the margins, as well as the influence of both local and non-local ice on sea level and ice dynamics.

  2. On the coupling of fluid dynamics and electromagnetism at the top of the earth's core

    Science.gov (United States)

    Benton, E. R.

    1985-01-01

    A kinematic approach to short-term geomagnetism has recently been based upon pre-Maxwell frozen-flux electromagnetism. A complete dynamic theory requires coupling fluid dynamics to electromagnetism. A geophysically plausible simplifying assumption for the vertical vorticity balance, namely that the vertical Lorentz torque is negligible, is introduced and its consequences are developed. The simplified coupled magnetohydrodynamic system is shown to conserve a variety of magnetic and vorticity flux integrals. These provide constraints on eligible models for the geomagnetic main field, its secular variation, and the horizontal fluid motions at the top of the core, and so permit a number of tests of the underlying assumptions.

  3. Border Figure Detection Using a Phase Oscillator Network with Dynamical Coupling

    Directory of Open Access Journals (Sweden)

    L. H. A. Monteiro

    2008-01-01

    Full Text Available Oscillator networks have been developed in order to perform specific tasks related to image processing. Here we analytically investigate the existence of synchronism in a pair of phase oscillators that are short-range dynamically coupled. Then, we use these analytical results to design a network able of detecting border of black-and-white figures. Each unit composing this network is a pair of such phase oscillators and is assigned to a pixel in the image. The couplings among the units forming the network are also dynamical. Border detection emerges from the network activity.

  4. Distinguishing emotional coregulation from codysregulation: an investigation of emotional dynamics and body weight in romantic couples.

    Science.gov (United States)

    Reed, Rebecca G; Barnard, Kobus; Butler, Emily A

    2015-02-01

    Well-regulated emotions, both within people and between relationship partners, play a key role in facilitating health and well-being. The present study examined 39 heterosexual couples' joint weight status (both partners are healthy-weight, both overweight, 1 healthy-weight, and 1 overweight) as a predictor of 2 interpersonal emotional patterns during a discussion of their shared lifestyle choices. The first pattern, coregulation, is one in which partners' coupled emotions show a dampening pattern over time and ultimately return to homeostatic levels. The second, codysregulation, is one in which partners' coupled emotions are amplified away from homeostatic balance. We demonstrate how a coupled linear oscillator (CLO) model (Butner, Amazeen, & Mulvey, 2005) can be used to distinguish coregulation from codysregulation. As predicted, healthy-weight couples and mixed-weight couples in which the man was heavier than the woman displayed coregulation, but overweight couples and mixed-weight couples in which the woman was heavier showed codysregulation. These results suggest that heterosexual couples in which the woman is overweight may face formidable coregulatory challenges that could undermine both partners' well-being. The results also demonstrate the importance of distinguishing between various interpersonal emotional dynamics for understanding connections between interpersonal emotions and health. PsycINFO Database Record (c) 2015 APA, all rights reserved.

  5. Dynamic Tuning of Plasmon-Exciton Coupling in Arrays of Nanodisk-J-aggregate Complexes

    KAUST Repository

    Zheng, Yue Bing

    2010-07-21

    Figure Presented Dynamic tuning of plasmon-exclton resonant coupling in arrays of nanodisk-J-aggregate complexes is demonstrated. The angle-resolved spectra of an array of bare gold nanodisks exhibit continuous shifting of localized surface plasmon resonance. This characteristic enables the production of real-time, controllable spectral overlap between molecular resonance and plasmóme resonance. The resonant interaction strength as a function of spectral overlap is explored and the coupling strength changes with the incident angle of a probe light, in accord with simulations based on coupled dipóle approximation method. © 2010 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  6. On the dynamics of traveling phase-oscillators with positive and negative couplings

    International Nuclear Information System (INIS)

    Choi, Jungzae; Choi, Mooyoung; Yoon, Byunggook

    2014-01-01

    We investigate numerically the dynamics of traveling clusters in systems of phase oscillators, some of which possess positive couplings and others negative couplings. The phase distribution, speed of traveling, and average separation between clusters, as well as the order parameters for positive and negative oscillators, are computed as the ratio of the two coupling constants and the fraction of positive oscillators are varied. The dependence of the traveling speed on these parameters is obtained and is observed to fit well with the numerical data of the systems. With the help of this, we describe the conditions for the traveling state to appear in the systems with and without a periodic driving field.

  7. Self-organized emergence of multilayer structure and chimera states in dynamical networks with adaptive couplings

    Science.gov (United States)

    Kasatkin, D. V.; Yanchuk, S.; Schöll, E.; Nekorkin, V. I.

    2017-12-01

    We report the phenomenon of self-organized emergence of hierarchical multilayered structures and chimera states in dynamical networks with adaptive couplings. This process is characterized by a sequential formation of subnetworks (layers) of densely coupled elements, the size of which is ordered in a hierarchical way, and which are weakly coupled between each other. We show that the hierarchical structure causes the decoupling of the subnetworks. Each layer can exhibit either a two-cluster state, a periodic traveling wave, or an incoherent state, and these states can coexist on different scales of subnetwork sizes.

  8. Coupling-induced cooperative behaviour in dynamic ferromagnetic cores in the presence of a noise floor

    Energy Technology Data Exchange (ETDEWEB)

    Bulsara, Adi R. [Space and Naval Warfare Systems Center San Diego, Code 2363, 53560 Hull Street, San Diego, CA 92152-5001 (United States)]. E-mail: bulsara@spawar.navy.mil; Lindner, John F. [Physics Department, College of Wooster, Wooster, OH 44691 (United States); In, Visarath [Space and Naval Warfare Systems Center San Diego, Code 2363, 53560 Hull Street, San Diego, CA 92152-5001 (United States); Kho, Andy [Space and Naval Warfare Systems Center San Diego, Code 2363, 53560 Hull Street, San Diego, CA 92152-5001 (United States); Baglio, Salvatore [Dipartimento di Ingegneria Elettrica Elettronica e dei Sistemi, Universita degli Studi di Catania, Viale A. Doria 6, 95125 Catania (Italy); Sacco, Vincenzo [Dipartimento di Ingegneria Elettrica Elettronica e dei Sistemi, Universita degli Studi di Catania, Viale A. Doria 6, 95125 Catania (Italy); Ando, Bruno [Dipartimento di Ingegneria Elettrica Elettronica e dei Sistemi, Universita degli Studi di Catania, Viale A. Doria 6, 95125 Catania (Italy); Longhini, Patrick [Nonlinear Dynamics Group, Department of Mathematics, San Diego State University, San Diego, CA 92182 (United States); Palacios, Antonio [Nonlinear Dynamics Group, Department of Mathematics, San Diego State University, San Diego, CA 92182 (United States); Rappel, Wouter-Jan [Physics Department, University of California at San Diego, La Jolla, CA 929093 (United States)

    2006-04-17

    Recently, we have shown the emergence of oscillations in overdamped undriven nonlinear dynamic systems subject to carefully crafted coupling schemes and operating conditions. Here, we summarize experimental results obtained on a system of N=3 coupled ferromagnetic cores, the underpinning of a 'coupled-core fluxgate magnetometer' (CCFM); the oscillatory behaviour is triggered when the coupling constant exceeds a threshold value (bifurcation point), and the oscillation frequency exhibits a characteristic scaling behaviour with the 'separation' of the coupling constant from its threshold value, as well as with an external target DC magnetic flux signal. The oscillations, which can be induced at frequencies ranging from a few Hz to high-kHz, afford a new detection scheme for weak target magnetic signals. We also present the first (numerical) results on the effects of a (Gaussian, exponentially correlated) noise floor on the spectral properties of the system response.

  9. Coupled-expanding maps and one-sided symbolic dynamical systems

    International Nuclear Information System (INIS)

    Shi Yuming; Ju, Hyonhui; Chen Guanrong

    2009-01-01

    This paper studies relationships between coupled-expanding maps and one-sided symbolic dynamical systems. The concept of coupled-expanding map is extended to a more general one: coupled-expansion for a transitive matrix. It is found that the subshift for a transitive matrix is strictly coupled-expanding for the matrix in certain disjoint compact subsets; the topological conjugacy of a continuous map in its compact invariant set of a metric space to a subshift for a transitive matrix has a close relationship with that the map is strictly coupled-expanding for the matrix in some disjoint compact subsets. A certain relationship between strictly coupled-expanding maps for a transitive matrix in disjoint bounded and closed subsets of a complete metric space and their topological conjugacy to the subshift for the matrix is also obtained. Dynamical behaviors of subshifts for irreducible matrices are then studied and several equivalent statements to chaos are obtained; especially, chaos in the sense of Li-Yorke is equivalent to chaos in the sense of Devaney for the subshift, and is also equivalent to that the domain of the subshift is infinite. Based on these results, several new criteria of chaos for maps are finally established via strict coupled-expansions for irreducible transitive matrices in compact subsets of metric spaces and in bounded and closed subsets of complete metric spaces, respectively, where their conditions are weaker than those existing in the literature.

  10. Research on rigid–flexible coupling dynamic characteristics of boom system in concrete pump truck

    Directory of Open Access Journals (Sweden)

    Hongbin Tang

    2015-03-01

    Full Text Available Concrete pump truck plays an important role in infrastructure construction and national economic development. In recent years, its boom system becomes longer, and its dynamic and control become more complicated. In order to study the dynamic characteristics of boom system, three dynamic models such as multi-rigid-body model, rigid–flexible coupling model, and rigid–flexible coupling model with equivalent hydraulic cylinder were built in this work. Simulation analysis and experimental analysis were done, and they show that we should not only consider the large-range motion but also consider the small flexible deformation to study the dynamic characteristics of boom system precisely. It provides the theoretical basis to vibration control, trajectory prediction, and life assessment for boom system and such structures.

  11. Erastin-Like Anti-Warburg Agents Prevent Mitochondrial Depolarization Induced by Free Tubulin and Decrease Lactate Formation in Cancer Cells.

    Science.gov (United States)

    DeHart, David N; Lemasters, John J; Maldonado, Eduardo N

    2018-01-01

    In Warburg metabolism, suppression of mitochondrial metabolism contributes to a low cytosolic ATP/ADP ratio favoring enhanced aerobic glycolysis. Flux of metabolites across the mitochondrial outer membrane occurs through voltage-dependent anion channels (VDAC). In cancer cells, free dimeric tubulin induces VDAC closure and dynamically regulates mitochondrial membrane potential (ΔΨ). Erastin, a small molecule that binds to VDAC, antagonizes the inhibitory effect of tubulin on VDAC and hyperpolarizes mitochondria in intact cells. Here, our aim was to identify novel compounds from the ChemBridge DIVERSet library that block the inhibitory effect of tubulin on ΔΨ using cell-based screening. HCC4006 cells were treated with nocodazole (NCZ) to increase free tubulin and decrease ΔΨ in the presence or absence of library compounds. Tetramethylrhodamine methylester (TMRM) fluorescence was assessed by high-content imaging to determine changes in ΔΨ. Compounds were considered positive if ΔΨ increased in the presence of NCZ. Using confocal microscopy, we identified and validated six lead molecules that antagonized the depolarizing effect of NCZ. Lead compounds and erastin did not promote microtubule stabilization, so changes in ΔΨ were independent of tubulin dynamics. The most potent lead compound also decreased lactate formation. These novel small molecules represent a potential new class of anti-Warburg drugs.

  12. Artificial Wrestling: A Dynamical Formulation of Autonomous Agents Fighting in a Coupled Inverted Pendula Framework

    OpenAIRE

    Yoshida, Katsutoshi; Matsumoto, Shigeki; Matsue, Yoichi

    2014-01-01

    We develop autonomous agents fighting with each other, inspired by human wrestling. For this purpose, we propose a coupled inverted pendula (CIP) framework in which: 1) tips of two inverted pendulums are linked by a connection rod, 2) each pendulum is primarily stabilized by a PD-controller, 3) and is additionally equipped with an intelligent controller. Based on this framework, we dynamically formulate an intelligent controller designed to store dynamical correspondence from initial states t...

  13. The dynamics of coupled atom and field assisted by continuous external pumping

    Energy Technology Data Exchange (ETDEWEB)

    Burlak, G.; Hernandez, J.A. [Centro de Investigacion en Ingenieria y Ciencias Aplicadas, Universidad Autonoma de Morelos, Cuernavaca, Morelos (Mexico); Starostenko, O. [Departamento de Fisica, Electronica, Sistemas y Mecatronica, Universidad de las Americas, 72820 Puebla (Mexico)

    2006-07-01

    The dynamics of a coupled system comprising a two-level atom and cavity field assisted by a continuous external classical field (driving Jaynes-Cummings model) is studied. When the initial field is prepared in a coherent state, the dynamics strongly depends on the algebraic sum of both fields. If this sum is zero (the compensative case) in the system, only the vacuum Rabi oscillations occur. The results with dissipation and external field detuning from the cavity field are also discussed. (Author)

  14. The dynamics of coupled atom and field assisted by continuous external pumping

    International Nuclear Information System (INIS)

    Burlak, G.; Hernandez, J.A.; Starostenko, O.

    2006-01-01

    The dynamics of a coupled system comprising a two-level atom and cavity field assisted by a continuous external classical field (driving Jaynes-Cummings model) is studied. When the initial field is prepared in a coherent state, the dynamics strongly depends on the algebraic sum of both fields. If this sum is zero (the compensative case) in the system, only the vacuum Rabi oscillations occur. The results with dissipation and external field detuning from the cavity field are also discussed. (Author)

  15. Coupled Dynamics of a Rotor-Journal Bearing System Equipped with Thrust Bearings

    OpenAIRE

    Yu Lie; R.B. Bhat

    1995-01-01

    The rotordynamic coefficients of fixed-pad thrust bearing are introduced and calculated by using the out-domain method, and a general analysis method is developed to investigate the coupled dynamics of a rotor equipped with journal and thrust bearings simultaneously. Considerations include the effects of static tilt parameters of the rotor on rotordynamic coefficients of thrust bearing and the action of thrust bearing on system dynamics. It is shown that thrust bearing changes the load distri...

  16. Investigations Into Internal and External Aspects of Dynamic Agent-Environment Couplings

    Science.gov (United States)

    Dautenhahn, Kerstin

    This paper originates from my work on `social agents'. An issue which I consider important to this kind of research is the dynamic coupling of an agent with its social and non-social environment. I hypothesize `internal dynamics' inside an agent as a basic step towards understanding. The paper therefore focuses on the internal and external dynamics which couple an agent to its environment. The issue of embodiment in animals and artifacts and its relation to `social dynamics' is discussed first. I argue that embodiment is linked to a concept of a body and is not necessarily given when running a control program on robot hardware. I stress the individual characteristics of an embodied cognitive system, as well as its social embeddedness. I outline the framework of a physical-psychological state space which changes dynamically in a self-modifying way as a holistic approach towards embodied human and artificial cognition. This framework is meant to discuss internal and external dynamics of an embodied, natural or artificial agent. In order to stress the importance of a dynamic memory I introduce the concept of an `autobiographical agent'. The second part of the paper gives an example of the implementation of a physical agent, a robot, which is dynamically coupled to its environment by balancing on a seesaw. For the control of the robot a behavior-oriented approach using the dynamical systems metaphor is used. The problem is studied through building a complete and co-adapted robot-environment system. A seesaw which varies its orientation with one or two degrees of freedom is used as the artificial `habitat'. The problem of stabilizing the body axis by active motion on a seesaw is solved by using two inclination sensors and a parallel, behavior-oriented control architecture. Some experiments are described which demonstrate the exploitation of the dynamics of the robot-environment system.

  17. Network dynamics and its relationships to topology and coupling structure in excitable complex networks

    International Nuclear Information System (INIS)

    Zhang Li-Sheng; Mi Yuan-Yuan; Gu Wei-Feng; Hu Gang

    2014-01-01

    All dynamic complex networks have two important aspects, pattern dynamics and network topology. Discovering different types of pattern dynamics and exploring how these dynamics depend on network topologies are tasks of both great theoretical importance and broad practical significance. In this paper we study the oscillatory behaviors of excitable complex networks (ECNs) and find some interesting dynamic behaviors of ECNs in oscillatory probability, the multiplicity of oscillatory attractors, period distribution, and different types of oscillatory patterns (e.g., periodic, quasiperiodic, and chaotic). In these aspects, we further explore strikingly sharp differences among network dynamics induced by different topologies (random or scale-free topologies) and different interaction structures (symmetric or asymmetric couplings). The mechanisms behind these differences are explained physically. (interdisciplinary physics and related areas of science and technology)

  18. Optimal control of dissipative nonlinear dynamical systems with triggers of coupled singularities

    International Nuclear Information System (INIS)

    Hedrih, K

    2008-01-01

    This paper analyses the controllability of motion of nonconservative nonlinear dynamical systems in which triggers of coupled singularities exist or appear. It is shown that the phase plane method is useful for the analysis of nonlinear dynamics of nonconservative systems with one degree of freedom of control strategies and also shows the way it can be used for controlling the relative motion in rheonomic systems having equivalent scleronomic conservative or nonconservative system For the system with one generalized coordinate described by nonlinear differential equation of nonlinear dynamics with trigger of coupled singularities, the functions of system potential energy and conservative force must satisfy some conditions defined by a Theorem on the existence of a trigger of coupled singularities and the separatrix in the form of 'an open a spiral form' of number eight. Task of the defined dynamical nonconservative system optimal control is: by using controlling force acting to the system, transfer initial state of the nonlinear dynamics of the system into the final state of the nonlinear dynamics in the minimal time for that optimal control task

  19. Optimal control of dissipative nonlinear dynamical systems with triggers of coupled singularities

    Energy Technology Data Exchange (ETDEWEB)

    Hedrih, K [Faculty of Mechanical Engineering University of Nis, Mathematical Institute SANU, ul. Vojvode Tankosic 3/V/22, 18000-Nis (Serbia)], E-mail: katica@masfak.ni.ac.yu, E-mail: khedrih@eunet.yu

    2008-02-15

    This paper analyses the controllability of motion of nonconservative nonlinear dynamical systems in which triggers of coupled singularities exist or appear. It is shown that the phase plane method is useful for the analysis of nonlinear dynamics of nonconservative systems with one degree of freedom of control strategies and also shows the way it can be used for controlling the relative motion in rheonomic systems having equivalent scleronomic conservative or nonconservative system For the system with one generalized coordinate described by nonlinear differential equation of nonlinear dynamics with trigger of coupled singularities, the functions of system potential energy and conservative force must satisfy some conditions defined by a Theorem on the existence of a trigger of coupled singularities and the separatrix in the form of 'an open a spiral form' of number eight. Task of the defined dynamical nonconservative system optimal control is: by using controlling force acting to the system, transfer initial state of the nonlinear dynamics of the system into the final state of the nonlinear dynamics in the minimal time for that optimal control task.

  20. Cosmological dynamics with non-minimally coupled scalar field and a constant potential function

    Energy Technology Data Exchange (ETDEWEB)

    Hrycyna, Orest [Theoretical Physics Division, National Centre for Nuclear Research, Hoża 69, 00-681 Warszawa (Poland); Szydłowski, Marek, E-mail: orest.hrycyna@ncbj.gov.pl, E-mail: marek.szydlowski@uj.edu.pl [Astronomical Observatory, Jagiellonian University, Orla 171, 30-244 Kraków (Poland)

    2015-11-01

    Dynamical systems methods are used to investigate global behaviour of the spatially flat Friedmann-Robertson-Walker cosmological model in gravitational theory with a non-minimally coupled scalar field and a constant potential function. We show that the system can be reduced to an autonomous three-dimensional dynamical system and additionally is equipped with an invariant manifold corresponding to an accelerated expansion of the universe. Using this invariant manifold we find an exact solution of the reduced dynamics. We investigate all solutions for all admissible initial conditions using theory of dynamical systems to obtain a classification of all evolutional paths. The right-hand sides of the dynamical system depend crucially on the value of the non-minimal coupling constant therefore we study bifurcation values of this parameter under which the structure of the phase space changes qualitatively. We found a special bifurcation value of the non-minimal coupling constant which is distinguished by dynamics of the model and may suggest some additional symmetry in matter sector of the theory.

  1. Dynamics of Time Delay-Induced Multiple Synchronous Behaviors in Inhibitory Coupled Neurons

    Science.gov (United States)

    Gu, Huaguang; Zhao, Zhiguo

    2015-01-01

    The inhibitory synapse can induce synchronous behaviors different from the anti-phase synchronous behaviors, which have been reported in recent studies. In the present paper, synchronous behaviors are investigated in the motif model composed of reciprocal inhibitory coupled neurons with endogenous bursting and time delay. When coupling strength is weak, synchronous behavior appears at a single interval of time delay within a bursting period. When coupling strength is strong, multiple synchronous behaviors appear at different intervals of time delay within a bursting period. The different bursting patterns of synchronous behaviors, and time delays and coupling strengths that can induce the synchronous bursting patterns can be well interpreted by the dynamics of the endogenous bursting pattern of isolated neuron, which is acquired by the fast-slow dissection method, combined with the inhibitory coupling current. For an isolated neuron, when a negative impulsive current with suitable strength is applied at different phases of the bursting, multiple different bursting patterns can be induced. For a neuron in the motif, the inhibitory coupling current, of which the application time and strength is modulated by time delay and coupling strength, can cause single or multiple synchronous firing patterns like the negative impulsive current when time delay and coupling strength is suitable. The difference compared to the previously reported multiple synchronous behaviors that appear at time delays wider than a period of the endogenous firing is discussed. The results present novel examples of synchronous behaviors in the neuronal network with inhibitory synapses and provide a reasonable explanation. PMID:26394224

  2. Bright soliton dynamics in spin orbit-Rabi coupled Bose-Einstein condensates

    Science.gov (United States)

    Vinayagam, P. S.; Radha, R.; Bhuvaneswari, S.; Ravisankar, R.; Muruganandam, P.

    2017-09-01

    We investigate the dynamics of a spin-orbit (SO) coupled BECs in a time dependent harmonic trap and show the dynamical system to be completely integrable by constructing the Lax pair. We then employ gauge transformation approach to witness the rapid oscillations of the condensates for a relatively smaller value of SO coupling in a time independent harmonic trap compared to their counterparts in a transient trap. Keeping track of the evolution of the condensates in a transient trap during its transition from confining to expulsive trap, we notice that they collapse in the expulsive trap. We further show that one can manipulate the scattering length through Feshbach resonance to stretch the lifetime of the confining trap and revive the condensate. Considering a SO coupled state as the initial state, the numerical simulation indicates that the reinforcement of Rabi coupling on SO coupled BECs generates the striped phase of the bright solitons and does not impact the stability of the condensates despite destroying the integrability of the dynamical system.

  3. Coupled dynamic analysis of a single gimbal control moment gyro cluster integrated with an isolation system

    Science.gov (United States)

    Luo, Qing; Li, Dongxu; Jiang, Jianping

    2014-01-01

    Control moment gyros (CMGs) are widely used as actuators for attitude control in spacecraft. However, micro-vibrations produced by CMGs will degrade the pointing performance of high-sensitivity instruments on-board the spacecraft. This paper addresses dynamic modelling and performs an analysis on the micro-vibration isolation for a single gimbal CMG (SGCMG) cluster. First, an analytical model was developed to describe both the coupled SGCMG cluster and the multi-axis isolation system that can express the dynamic outputs. This analytical model accurately reflects the mass and inertia properties, the gyroscopic effects and flexible modes of the coupled system, which can be generalized for isolation applications of SGCMG clusters. Second, the analytical model was validated using MSC.NASTRAN software based on the finite element technique. The dynamic characteristics of the coupled system are affected by the mass distribution and the gyroscopic effects of the SGCMGs. The gyroscopic effects produced by the rotary flywheel will stiffen or soften several of the structural modes of the coupled system. In addition, the gyroscopic effect of each SGCMG can interact with or counteract that of others, which induce vibration modes coupled together. Finally, the performance of the passive isolation was analysed. It was demonstrated that the gyroscopic effects should be considered in isolation studies on SGCMG clusters; otherwise, the isolation performance will be underestimated if they are ignored.

  4. Love as a Battlefield: Attachment and Relationship Dynamics in Couples Identified for Male Partner Violence

    Science.gov (United States)

    Allison, Colleen J.; Bartholomew, Kim; Mayseless, Ofra; Dutton, Donald G.

    2008-01-01

    The authors explored the attachment dynamics of heterosexual couples identified for male partner violence. Based on semistructured interviews, participants were assessed for attachment orientations. Based on a thematic analysis of the interviews, two strategies for regulating distance within these relationships were identified: pursuit and…

  5. Measure of the QT-RR Dynamic Coupling in Patients with the Long QT Syndrome

    Czech Academy of Sciences Publication Activity Database

    Halámek, Josef; Couderc, J. P.; Jurák, Pavel; Vondra, Vlastimil; Zareba, W.; Viščor, Ivo; Leinveber, P.

    2012-01-01

    Roč. 17, č. 4 (2012), s. 323-330 ISSN 1082-720X R&D Projects: GA MŠk ME09050 Institutional support: RVO:68081731 Keywords : Long QT syndrome * Dynamic QT-RR coupling * Holter recording * QT adaptation * QT parameters Subject RIV: FA - Cardiovascular Diseases incl. Cardiotharic Surgery Impact factor: 1.084, year: 2012

  6. Family planning decisions, perceptions and gender dynamics among couples in Mwanza, Tanzania: a qualitative study

    NARCIS (Netherlands)

    Mosha, I.H.; Ruben, R.; Kakoko, D.C.

    2013-01-01

    Background: Contraceptive use is low in developing countries which are still largely driven by male dominated culture and patriarchal values. This study explored family planning (FP) decisions, perceptions and gender dynamics among couples in Mwanza region of Tanzania. Methods: Twelve focus group

  7. Space robots with flexible appendages: Dynamic modeling, coupling measurement, and vibration suppression

    Science.gov (United States)

    Meng, Deshan; Wang, Xueqian; Xu, Wenfu; Liang, Bin

    2017-05-01

    For a space robot with flexible appendages, vibrations of flexible structure can be easily excited during both orbit and/or attitude maneuvers of the base and the operation of the manipulators. Hence, the pose (position and attitude) of the manipulator's end-effector will greatly deviate from the desired values, and furthermore, the motion of the manipulator will trigger and exacerbate vibrations of flexible appendages. Given lack of the atmospheric damping in orbit, the vibrations will last for quite a while and cause the on-orbital tasks to fail. We derived the rigid-flexible coupling dynamics of a space robot system with flexible appendages and established a coupling model between the flexible base and the space manipulator. A specific index was defined to measure the coupling degree between the flexible motion of the appendages and the rigid motion of the end-effector. Then, we analyzed the dynamic coupling for different conditions, such as modal displacements, joint angles (manipulator configuration), and mass properties. Moreover, the coupling map was adopted and drawn to represent the coupling motion. Based on this map, a trajectory planning method was addressed to suppress structure vibration. Finally, simulation studies of typical cases were performed, which verified the proposed models and method. This work provides a theoretic basis for the system design, performance evaluation, trajectory planning, and control of such space robots.

  8. Dynamics of quantum Fisher information in a two-level system coupled to multiple bosonic reservoirs

    Science.gov (United States)

    Wang, Guo-You; Guo, You-Neng; Zeng, Ke

    2015-11-01

    We consider the optimal parameter estimation for a two-level system coupled to multiple bosonic reservoirs. By using quantum Fisher information (QFI), we investigate the effect of the Markovian reservoirs’ number N on QFI in both weak and strong coupling regimes for a two-level system surrounded by N zero-temperature reservoirs of field modes initially in the vacua. The results show that the dynamics of QFI non-monotonically decays to zero with revival oscillations at some time in the weak coupling regime depending on the reservoirs’ parameters. Furthermore, we also present the relations between the QFI flow, the flows of energy and information, and the sign of the decay rate to gain insight into the physical processes characterizing the dynamics. Project supported by the Hunan Provincial Innovation Foundation for Postgraduate, China (Grant No. CX2014B194) and the Scientific Research Foundation of Hunan Provincial Education Department, China (Grant No. 13C039).

  9. Dynamical Negative Differential Resistance in Antiferromagnetically Coupled Few-Atom Spin Chains

    Science.gov (United States)

    Rolf-Pissarczyk, Steffen; Yan, Shichao; Malavolti, Luigi; Burgess, Jacob A. J.; McMurtrie, Gregory; Loth, Sebastian

    2017-11-01

    We present the appearance of negative differential resistance (NDR) in spin-dependent electron transport through a few-atom spin chain. A chain of three antiferromagnetically coupled Fe atoms (Fe trimer) was positioned on a Cu2 N /Cu (100 ) surface and contacted with the spin-polarized tip of a scanning tunneling microscope, thus coupling the Fe trimer to one nonmagnetic and one magnetic lead. Pronounced NDR appears at the low bias of 7 mV, where inelastic electron tunneling dynamically locks the atomic spin in a long-lived excited state. This causes a rapid increase of the magnetoresistance between the spin-polarized tip and Fe trimer and quenches elastic tunneling. By varying the coupling strength between the tip and Fe trimer, we find that in this transport regime the dynamic locking of the Fe trimer competes with magnetic exchange interaction, which statically forces the Fe trimer into its high-magnetoresistance state and removes the NDR.

  10. Structural and Functional Consequences of Increased Tubulin Glycosylation in Diabetes Mellitus

    Science.gov (United States)

    Williams, Stuart K.; Howarth, Nancy L.; Devenny, James J.; Bitensky, Mark W.

    1982-11-01

    The extent of in vitro nonenzymatic glycosylation of purified rat brain tubulin was dependent on time and glucose concentration. Tubulin glycosylation profoundly inhibited GTP-dependent tubulin polymerization. Electron microscopy and NaDodSO4/polyacrylamide gel electrophoresis showed that glycosylated tubulin forms high molecular weight amorphous aggregates that are not disrupted by detergents or reducing agents. The amount of covalently bound NaB3H4-reducible sugars in tubulin recovered from brain of streptozotocin-induced diabetic rats was dramatically increased as compared with tubulin recovered from normal rat brain. Moreover, tubulin recovered from diabetic rat brain exhibited less GTP-induced polymerization than tubulin from nondiabetic controls. The possible implications of these data for diabetic neuropathy are discussed.

  11. Dynamic analysis of the pump system based on MOC–CFD coupled method

    International Nuclear Information System (INIS)

    Yang, Shuai; Chen, Xin; Wu, Dazhuan; Yan, Peng

    2015-01-01

    Highlights: • MOC–CFD coupled method was proposed to get the pump internal and external characteristics. • The coupled strategy and procedure were explained. • Some typical simulation cases were made for different factors. • The pump head deviation grows with the severity of the transient. • Valve closure law in linear and longer pipeline will cause higher pump head deviation. - Abstract: The dynamic characteristics of pump response to transient events were investigated by combining the Method of Characteristic (MOC) and Computational Fluid Dynamics (CFD) together. In a typical pump–pipeline–valve system, similar to the reactor system, the pump is treated as three-dimensional CFD model using Fluent code, whereas the rest is represented by one-dimensional components using MOC. A description of the coupling theory and procedure ensuring proper communication within the two codes is given. Several transient flow operations have been carried out. In the initial steady-state simulation, the coupled method could accurately find the operating condition of the pump when the valve is fully open. When the valve is closed rapidly, preliminary comparative calculations demonstrate that the coupled method is efficient in simulating the dynamic behavior of the pump and capable of getting detailed fluid field evolutions inside the pump. Deviation between the dynamic pump head and the value given by the steady-state curve at the same instantaneous flow-rate was established, and the cause of the deviation was further explained by the comparison of pump internal and external characteristics. Furthermore, it was found that the deviation grows with the severity of the transient. In addition, the effects of valve closure laws and pipe length on the pump dynamic performances were evaluated. All the results showed that MOC–CFD is an efficient and promising way for simulating the interaction between pump model and piping system

  12. Exact cancellation of emittance growth due to coupled transverse dynamics in solenoids and rf couplers

    Science.gov (United States)

    Dowell, David H.; Zhou, Feng; Schmerge, John

    2018-01-01

    Weak, rotated magnetic and radio frequency quadrupole fields in electron guns and injectors can couple the beam's horizontal with vertical motion, introduce correlations between otherwise orthogonal transverse momenta, and reduce the beam brightness. This paper discusses two important sources of coupled transverse dynamics common to most electron injectors. The first is quadrupole focusing followed by beam rotation in a solenoid, and the second coupling comes from a skewed high-power rf coupler or cavity port which has a rotated rf quadrupole field. It is shown that a dc quadrupole field can correct for both types of couplings and exactly cancel their emittance growths. The degree of cancellation of the rf skew quadrupole emittance is limited by the electron bunch length. Analytic expressions are derived and compared with emittance simulations and measurements.

  13. Variational coupling between q-number and c-number dynamics

    International Nuclear Information System (INIS)

    Amaral, C.M. do; Joffily, S.

    1984-01-01

    The time-dependent quantum variational principle is generalized for the case of hamiltonian operators having real parameters and their time derivates. The obtained variational system is formed by a Schroedinger equation coupled to a Lagrange equation system, where the lagrangian is the average value of the parametrized hamiltonian operator. The consequent dynamics of the variational principle, describes the interaction between a q-number sub-dynamics with a c-number sub-dynamics. In the ((h/2π)) 0 -order W.K.B. approximation, the variational system reduces to a Hamilton-Jacobi-like equation, coupled to a Lagrange equation family. The formal features of the obtained variational system are appropriated for the description of, adiabatics and non-adiabatics, time-dependent q-number c-number interactions. (L.C.) [pt

  14. On-the-fly, electric-field-driven, coupled electron-nuclear dynamics.

    Science.gov (United States)

    Jones, Garth A; Acocella, Angela; Zerbetto, Francesco

    2008-10-09

    An on-the-fly, electric field driven, coupled electron-nuclear dynamics approach is developed and applied to model the photodissociation of water in the A((1)B1) excited state. In this method, a quantum propagator evolves the photon-induced electronic dynamics in the ultrafast time scale, and a quasi-classical surface hopping approach describes the nuclear dynamics in the slower time scale. In addition, strong system-field interactions are explicitly included in the electronic propagator. This theoretical development enables us to study rapid photon-induced bond dissociation dynamics and demonstrates the partial breakdown of electronic coherence as well as electronic population trapping in the excited state when the molecular vibrations detune the system with respect to the applied field. The method offers a practical way to use on-the-fly dynamics for modeling light-molecule interactions that lead to interesting photochemical events.

  15. Role of the Pair Correlation Function in the Dynamical Transition Predicted by Mode Coupling Theory.

    Science.gov (United States)

    Nandi, Manoj Kumar; Banerjee, Atreyee; Dasgupta, Chandan; Bhattacharyya, Sarika Maitra

    2017-12-29

    In a recent study, we have found that for a large number of systems the configurational entropy at the pair level S_{c2}, which is primarily determined by the pair correlation function, vanishes at the dynamical transition temperature T_{c}. Thus, it appears that the information of the transition temperature is embedded in the structure of the liquid. In order to investigate this, we describe the dynamics of the system at the mean field level and, using the concepts of the dynamical density functional theory, show that the dynamical transition temperature depends only on the pair correlation function. Thus, this theory is similar in spirit to the microscopic mode coupling theory (MCT). However, unlike microscopic MCT, which predicts a very high transition temperature, the present theory predicts a transition temperature that is similar to T_{c}. This implies that the information of the dynamical transition temperature is embedded in the pair correlation function.

  16. Role of the Pair Correlation Function in the Dynamical Transition Predicted by Mode Coupling Theory

    Science.gov (United States)

    Nandi, Manoj Kumar; Banerjee, Atreyee; Dasgupta, Chandan; Bhattacharyya, Sarika Maitra

    2017-12-01

    In a recent study, we have found that for a large number of systems the configurational entropy at the pair level Sc 2, which is primarily determined by the pair correlation function, vanishes at the dynamical transition temperature Tc. Thus, it appears that the information of the transition temperature is embedded in the structure of the liquid. In order to investigate this, we describe the dynamics of the system at the mean field level and, using the concepts of the dynamical density functional theory, show that the dynamical transition temperature depends only on the pair correlation function. Thus, this theory is similar in spirit to the microscopic mode coupling theory (MCT). However, unlike microscopic MCT, which predicts a very high transition temperature, the present theory predicts a transition temperature that is similar to Tc. This implies that the information of the dynamical transition temperature is embedded in the pair correlation function.

  17. Cardiovascular coupling analysis with high-resolution joint symbolic dynamics in patients suffering from acute schizophrenia

    International Nuclear Information System (INIS)

    Schulz, Steffen; Tupaika, Nadine; Voss, Andreas; Berger, Sandy; Bär, Karl-Jürgen; Haueisen, Jens

    2013-01-01

    Besides the well-known cardiac risk factors for schizophrenia, increasing concerns have been raised regarding the cardiac side-effects of antipsychotic medications. A bivariate analysis of autonomic regulation, based on cardiovascular coupling, can provide additional information about heart rate (HR) and blood pressure regulatory patterns within the complex interactions of the cardiovascular system. We introduce a new high-resolution coupling analysis method (HRJSD) based on joint symbolic dynamics (JSD), which is characterized by three symbols, a threshold (individual dynamic variability, physiological) for time series transformation and eight coupling pattern families. This is based on a redundancy reduction strategy used to quantify and characterize cardiovascular couplings. In this study, short-term (30 min) HR and systolic blood pressure (SP) time series of 42 unmedicated (UNMED) and 42 medicated patients (MED) suffering from acute schizophrenia were analysed to establish the suitability of the new method for quantifying the effects of antipsychotics on cardiovascular couplings. We were able to demonstrate that HRJSD, applying the threshold based on spontaneous baroreflex sensitivity (BRS) estimation, revealed eight significant pattern families that were able to quantify the anti-cholinergic effects of antipsychotics and the related changes of cardiovascular regulation (coupling) in MED in comparison to UNMED. This was in contrast to the simple JSD, BRS (sequence method) and only partly to standard linear HR variability indices. HRJSD provides strong evidence that autonomic regulation in MED seems to be, to some extent, predominated by invariable HR responses in combination with alternating SP values in contrast to UNMED, indicating an impairment of the baroreflex control feedback loop in MED. Surrogate data analysis was applied to test for the significance and nonlinearity of cardiovascular couplings in the original data due to medical treatment with

  18. Spatiotemporal dynamics of a digital phase-locked loop based coupled map lattice system.

    Science.gov (United States)

    Banerjee, Tanmoy; Paul, Bishwajit; Sarkar, B C

    2014-03-01

    We explore the spatiotemporal dynamics of a coupled map lattice (CML) system, which is realized with a one dimensional array of locally coupled digital phase-locked loops (DPLLs). DPLL is a nonlinear feedback-controlled system widely used as an important building block of electronic communication systems. We derive the phase-error equation of the spatially extended system of coupled DPLLs, which resembles a form of the equation of a CML system. We carry out stability analysis for the synchronized homogeneous solutions using the circulant matrix formalism. It is shown through extensive numerical simulations that with the variation of nonlinearity parameter and coupling strength the system shows transitions among several generic features of spatiotemporal dynamics, viz., synchronized fixed point solution, frozen random pattern, pattern selection, spatiotemporal intermittency, and fully developed spatiotemporal chaos. We quantify the spatiotemporal dynamics using quantitative measures like average quadratic deviation and spatial correlation function. We emphasize that instead of using an idealized model of CML, which is usually employed to observe the spatiotemporal behaviors, we consider a real world physical system and establish the existence of spatiotemporal chaos and other patterns in this system. We also discuss the importance of the present study in engineering application like removal of clock-skew in parallel processors.

  19. EB1 recognizes the nucleotide state of tubulin in the microtubule lattice.

    Directory of Open Access Journals (Sweden)

    Marija Zanic

    Full Text Available Plus-end-tracking proteins (+TIPs are localized at the fast-growing, or plus end, of microtubules, and link microtubule ends to cellular structures. One of the best studied +TIPs is EB1, which forms comet-like structures at the tips of growing microtubules. The molecular mechanisms by which EB1 recognizes and tracks growing microtubule ends are largely unknown. However, one clue is that EB1 can bind directly to a microtubule end in the absence of other proteins. Here we use an in vitro assay for dynamic microtubule growth with two-color total-internal-reflection-fluorescence imaging to investigate binding of mammalian EB1 to both stabilized and dynamic microtubules. We find that under conditions of microtubule growth, EB1 not only tip tracks, as previously shown, but also preferentially recognizes the GMPCPP microtubule lattice as opposed to the GDP lattice. The interaction of EB1 with the GMPCPP microtubule lattice depends on the E-hook of tubulin, as well as the amount of salt in solution. The ability to distinguish different nucleotide states of tubulin in microtubule lattice may contribute to the end-tracking mechanism of EB1.

  20. Assessing spatial coupling in complex population dynamics using mutual prediction and continuity statistics

    Science.gov (United States)

    Nichols, J.M.; Moniz, L.; Nichols, J.D.; Pecora, L.M.; Cooch, E.

    2005-01-01

    A number of important questions in ecology involve the possibility of interactions or ?coupling? among potential components of ecological systems. The basic question of whether two components are coupled (exhibit dynamical interdependence) is relevant to investigations of movement of animals over space, population regulation, food webs and trophic interactions, and is also useful in the design of monitoring programs. For example, in spatially extended systems, coupling among populations in different locations implies the existence of redundant information in the system and the possibility of exploiting this redundancy in the development of spatial sampling designs. One approach to the identification of coupling involves study of the purported mechanisms linking system components. Another approach is based on time series of two potential components of the same system and, in previous ecological work, has relied on linear cross-correlation analysis. Here we present two different attractor-based approaches, continuity and mutual prediction, for determining the degree to which two population time series (e.g., at different spatial locations) are coupled. Both approaches are demonstrated on a one-dimensional predator?prey model system exhibiting complex dynamics. Of particular interest is the spatial asymmetry introduced into the model as linearly declining resource for the prey over the domain of the spatial coordinate. Results from these approaches are then compared to the more standard cross-correlation analysis. In contrast to cross-correlation, both continuity and mutual prediction are clearly able to discern the asymmetry in the flow of information through this system.

  1. Numerical study on air-structure coupling dynamic characteristics of the axial fan blade

    Science.gov (United States)

    Chen, Q. G.; Xie, B.; Li, F.; Gu, W. G.

    2013-12-01

    In order to understand the dynamic characteristics of the axial-flow fan blade due to the effect of rotating stress and the action of unsteady aerodynamic forces caused by the airflow, a numerical simulation method for air-structure coupling in an axial-flow fan with fixed rear guide blades was performed. The dynamic characteristics of an axial-flow fan rotating blade were studied by using the two-way air-structure coupling method. Based on the standard k-ε turbulence model, and using weak coupling method, the preceding six orders modal parameters of the rotating blade were obtained, and the distributions of stress and strain on the rotating blade were presented. The results show that the modal frequency from the first to the sixth order is 3Hz higher than the modal frequency without considering air-structure coupling interaction; the maximum stress and the maximum strain are all occurred in the vicinity of root area of the blade no matter the air-structure coupling is considered or not, thus, the blade root is the dangerous location subjected to fatigue break; the position of maximum deformation is at the blade tip, so the vibration of the blade tip is significant. This study can provide theoretical references for the further study on the strength analysis and mechanical optimal design.

  2. Multiple tubulin forms in ciliated protozoan Tetrahymena and Paramecium species

    Czech Academy of Sciences Publication Activity Database

    Libusová, Lenka; Dráber, Pavel

    2006-01-01

    Roč. 227, 2-4 (2006), s. 65-76 ISSN 0033-183X R&D Projects: GA MŠk(CZ) LC545 Institutional research plan: CEZ:AV0Z50520514 Keywords : tubulin * posttranslational modifications * ciliated Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 1.333, year: 2006

  3. Goal-directed multimodal locomotion through coupling between mechanical and attractor selection dynamics.

    Science.gov (United States)

    Nurzaman, S G; Yu, X; Kim, Y; Iida, F

    2015-03-26

    One of the most significant challenges in bio-inspired robotics is how to realize and take advantage of multimodal locomotion, which may help robots perform a variety of tasks adaptively in different environments. In order to address the challenge properly, it is important to notice that locomotion dynamics are the result of interactions between a particular internal control structure, the mechanical dynamics and the environment. From this perspective, this paper presents an approach to enable a robot to take advantage of its multiple locomotion modes by coupling the mechanical dynamics of the robot with an internal control structure known as an attractor selection model. The robot used is a curved-beam hopping robot; this robot, despite its simple actuation method, possesses rich and complex mechanical dynamics that are dependent on its interactions with the environment. Through dynamical coupling, we will show how this robot performs goal-directed locomotion by gracefully shifting between different locomotion modes regulated by sensory input, the robot's mechanical dynamics and an internally generated perturbation. The efficacy of the approach is validated and discussed based on the simulation and on real-world experiments.

  4. Dynamic Analysis of the High Speed Train and Slab Track Nonlinear Coupling System with the Cross Iteration Algorithm

    OpenAIRE

    Xiaoyan Lei; Shenhua Wu; Bin Zhang

    2016-01-01

    A model for dynamic analysis of the vehicle-track nonlinear coupling system is established by the finite element method. The whole system is divided into two subsystems: the vehicle subsystem and the track subsystem. Coupling of the two subsystems is achieved by equilibrium conditions for wheel-to-rail nonlinear contact forces and geometrical compatibility conditions. To solve the nonlinear dynamics equations for the vehicle-track coupling system, a cross iteration algorithm and a relaxation ...

  5. Synchronization dynamics of chemically coupled cells with activator–inhibitor pathways

    Energy Technology Data Exchange (ETDEWEB)

    Guemkam Ghomsi, P. [Complex Systems and Theoretical Biology Group, Laboratory of Research on Advanced Materials and Nonlinear Science (LaRAMaNS), Department of Physics, Faculty of Science, University of Buea, P.O. Box 63, Buea (Cameroon); Laboratoire de Mécanique, Department of Physics, Faculty of Science, University of Yaoundé I, P.O. Box 812, Yaoundé (Cameroon); Moukam Kakmeni, F.M., E-mail: moukam.kakmeni@ubuea.cm [Complex Systems and Theoretical Biology Group, Laboratory of Research on Advanced Materials and Nonlinear Science (LaRAMaNS), Department of Physics, Faculty of Science, University of Buea, P.O. Box 63, Buea (Cameroon); Kofane, T.C.; Tchawoua, C. [Laboratoire de Mécanique, Department of Physics, Faculty of Science, University of Yaoundé I, P.O. Box 812, Yaoundé (Cameroon)

    2014-08-01

    Systems of interacting cells containing an activator–inhibitor pathway, regulating naturally in their inner parts their end-product concentrations through a sequence of biochemical reactions with feedback-loops: an end-product inhibition of the first substrate, and an autocatalytic activation of the end-product through an allosteric enzyme-mediated reaction are investigated. The individual cells are considered to be identical and are described by nonlinear differential equations recently proposed following the concerted transition model. The chemical and electrical coupling types, realized by exchange of metabolites across concentration of the cells are used in order to analyze the onset of phase and complete synchronization in the biochemical system. It is found that depending on the coupling nature and the range of coupling strength, cells enter into different synchronization regimes going from low-quality to high-quality synchronization. The synchronization manifold's stability is analyzed. The results are supported by numerical simulations using indicators such as the conditional Lyapunov exponents and the rate of change of the Lyapunov function. The results indicate that the system cannot completely synchronize under the single action of the chemical coupling. The combined effect of both chemical and electrical couplings is found to be of capital importance in the onset of complete synchronization and high quality synchronization. - Highlights: • We investigate the dynamics and synchronization of cells with activator–inhibitor pathways. • A complete study of fixed points' stability and bifurcations of the system is done. • It is found that chemically coupled cells only display phase synchronization. • Electrical coupling is important for complete synchronization in the coupled cells. • High quality synchronization is observed in the coupled cells.

  6. Interface model coupling in fluid dynamics: application to two-phase flows

    International Nuclear Information System (INIS)

    Galie, Th.

    2009-03-01

    This thesis is devoted to the study of interface model coupling problems in space between different models of compressible flows. We consider one-dimensional problems where the interface is sharp, fixed and separating two regions of space corresponding to the two coupled models. Our goal is to define a coupling condition at the interface and to solve numerically the coupling problem with this condition. After a state of art on the interface model coupling of hyperbolic systems of conservation laws, we propose a new coupling condition by adding in the equations of the coupled problem a measure source term at the interface. We first suppose a given constant weight associated to this source term. Two Riemann solvers are developed and one of them is based on a relaxation approach preserving equilibrium solutions of the coupled problem. This relaxation method is then used in an optimization problem, defined by several motivations at the interface, which permits to calculate a time dynamical weight. In a second part, we develop an approached Riemann solver for a two-phase two-pressure model in the particular case of a two-phase isentropic flow. Such a model contains non conservative terms that we write under the form of measure source terms. The previous relaxation method is thus extended to the case of the two-phase two-pressure model with an a priori estimation of the non conservative term contributions. The method allows us to solve, in the next and last chapter, the coupling problem of a two-fluid two-pressure model with a drift-flux model thanks to the father model approach. (authors)

  7. The effect of temperature on the coupled slow and fast dynamics of an electrochemical oscillator

    Science.gov (United States)

    Zülke, Alana A.; Varela, Hamilton

    2016-04-01

    The coupling among disparate time-scales is ubiquitous in many chemical and biological systems. We have recently investigated the effect of fast and, long-term, slow dynamics in surface processes underlying some electrocatalytic reactions. Herein we report on the effect of temperature on the coupled slow and fast dynamics of a model system, namely the electro-oxidation of formic acid on platinum studied at five temperatures between 5 and 45 °C. The main result was a turning point found at 25 °C, which clearly defines two regions for the temperature dependency on the overall kinetics. In addition, the long-term evolution allowed us to compare reaction steps related to fast and slow evolutions. Results were discussed in terms of the key role of PtO species, which chemically couple slow and fast dynamics. In summary we were able to: (a) identify the competition between two reaction steps as responsible for the occurrence of two temperature domains; (b) compare the relative activation energies of these two steps; and (c) suggest the role of a given reaction step on the period-increasing set of reactions involved in the oscillatory dynamics. The introduced methodology could be applied to other systems to uncover the temperature dependence of complex chemical networks.

  8. Real-Time G-Protein-Coupled Receptor Imaging to Understand and Quantify Receptor Dynamics

    Directory of Open Access Journals (Sweden)

    María S. Aymerich

    2011-01-01

    Full Text Available Understanding the trafficking of G-protein-coupled receptors (GPCRs and their regulation by agonists and antagonists is fundamental to develop more effective drugs. Optical methods using fluorescent-tagged receptors and spinning disk confocal microscopy are useful tools to investigate membrane receptor dynamics in living cells. The aim of this study was to develop a method to characterize receptor dynamics using this system which offers the advantage of very fast image acquisition with minimal cell perturbation. However, in short-term assays photobleaching was still a problem. Thus, we developed a procedure to perform a photobleaching-corrected image analysis. A study of short-term dynamics of the long isoform of the dopamine type 2 receptor revealed an agonist-induced increase in the mobile fraction of receptors with a rate of movement of 0.08 μm/s For long-term assays, the ratio between the relative fluorescence intensity at the cell surface versus that in the intracellular compartment indicated that receptor internalization only occurred in cells co-expressing G protein-coupled receptor kinase 2. These results indicate that the lateral movement of receptors and receptor internalization are not directly coupled. Thus, we believe that live imaging of GPCRs using spinning disk confocal image analysis constitutes a powerful tool to study of receptor dynamics.

  9. Quantum Simulation of the Ultrastrong-Coupling Dynamics in Circuit Quantum Electrodynamics

    Directory of Open Access Journals (Sweden)

    D. Ballester

    2012-05-01

    Full Text Available We propose a method to get experimental access to the physics of the ultrastrong- and deep-strong-coupling regimes of light-matter interaction through the quantum simulation of their dynamics in standard circuit QED. The method makes use of a two-tone driving scheme, using state-of-the-art circuit-QED technology, and can be easily extended to general cavity-QED setups. We provide examples of ultrastrong- and deep-strong-coupling quantum effects that would be otherwise inaccessible.

  10. Coupled Outdoor and Indoor Airflow Prediction for Buildings Using Computational Fluid Dynamics (CFD

    Directory of Open Access Journals (Sweden)

    Deo Prasad

    2013-05-01

    Full Text Available The objective of this study is to investigate the accuracy of Computational Fluid Dynamics (CFD for simultaneously predicting the outdoor and indoor airflows of single-cell and multi-storey buildings. Empirical models and two existing wind tunnel experimental data are used for validation. This study found that coupled CFD simulations provide sufficiently accurate airflow predictions and, in cases of buildings with complex façade treatments, accurately accounts for changes in ventilation performance, which may be impossible using empirical models. This study concludes that coupled CFD simulations can generally be used to predict ventilation performance in small and large buildings.

  11. Lattice dynamics study of low energy guest host coupling in clathrate hydrate

    Science.gov (United States)

    Yang, Yue-Hai; Dong, Shun-Le; Wang, Lin

    2008-01-01

    Our lattice dynamics simulation of Xe-hydrate with four-site TIP4P oxygen-shell model can accurately reproduce each peak position in the inelastic incoherent neutron scattering spectrum at the acoustic band (below 15meV) and yield correct relative intensity. Based on the results, the uncertain profile at ~6 meV is assigned to anharmonic guest modes coupled strongly to small cages. Blue shift is proposed in phonon dispersion sheet in the case of anticrossing and found to be an evident signal for guest-host coupling that explains the anomalous thermal conductivity of clathrate hydrate.

  12. Multiscale Modeling of Blood Flow: Coupling Finite Elements with Smoothed Dissipative Particle Dynamics

    KAUST Repository

    Moreno Chaparro, Nicolas

    2013-06-01

    A variational multi scale approach to model blood flow through arteries is proposed. A finite element discretization to represent the coarse scales (macro size), is coupled to smoothed dissipative particle dynamics that captures the fine scale features (micro scale). Blood is assumed to be incompressible, and flow is described through the Navier Stokes equation. The proposed cou- pling is tested with two benchmark problems, in fully coupled systems. Further refinements of the model can be incorporated in order to explicitly include blood constituents and non-Newtonian behavior. The suggested algorithm can be used with any particle-based method able to solve the Navier-Stokes equation.

  13. Synchronization of Complex Dynamical Networks with Nonidentical Nodes and Derivative Coupling via Distributed Adaptive Control

    Directory of Open Access Journals (Sweden)

    Miao Shi

    2013-01-01

    Full Text Available Adaptive synchronization control is proposed for a new complex dynamical network model with nonidentical nodes and nonderivative and derivative couplings. The distributed adaptive learning laws of periodically time-varying and constant parameters and distributed adaptive control are designed. The new method which can obtain the synchronization error of closed-loop complex network system is asymptotic convergence in the sense of square error norm. What is more, the coupling matrix is not assumed to be symmetric or irreducible. Finally, a simulation example shows the feasibility and effectiveness of the approach.

  14. Distributed Adaptive Synchronization for Complex Dynamical Networks with Uncertain Nonlinear Neutral-Type Coupling

    Directory of Open Access Journals (Sweden)

    Shi Miao

    2013-01-01

    Full Text Available Distributed adaptive synchronization control for complex dynamical networks with nonlinear derivative coupling is proposed. The distributed adaptive strategies are constituted by directed connections among nodes. By means of the parameters separation, the nonlinear functions can be transformed into the linearly form. Then effective distributed adaptive techniques are designed to eliminate the effect of time-varying parameters and made the considered network synchronize a given trajectory in the sense of square error norm. Furthermore, the coupling matrix is not assumed to be symmetric or irreducible. An example shows the applicability and feasibility of the approach.

  15. Dynamic Coupling Analysis of a Spatial 6-DOF Electro-Hydraulic Parallel Manipulator Using a Modal Decoupling Method

    Directory of Open Access Journals (Sweden)

    Chifu Yang

    2013-02-01

    Full Text Available The workspace of a spatial 6-DOF electro-hydraulic parallel manipulator is strongly coupled, due to its multi-closed-loop kinematic structure and the coupling complicates motion planning and control of the parallel manipulator. This paper clearly analyses the strong dynamic coupling property in the workspace of a spatial 6-DOF parallel manipulator, using modal decoupling theory and a frequency responses characteristics analysis method. The dynamic model of a spatial 6-DOF electro-hydraulic parallel manipulator is expressed with the Kane method and hydromechanics principles. The modal analysis method is used to establish the map between strong coupling workspace and decoupled modal space and the dynamic coupling relationship and coupling strength between workspaces are exactly revealed. The quantitative evaluation index of dynamic coupling is presented. Moreover, the relationship between dynamic coupling effects and input is discussed through applying frequency characteristics analysis. Experimental results show the workspace of the parallel manipulator is strongly coupled and the coupling property is coincident with theoretical results.

  16. Global Phase Synchronization for a Class of Dynamical Complex Networks with Time-Varying Coupling Delays

    Directory of Open Access Journals (Sweden)

    Li XinBin

    2010-01-01

    Full Text Available Global phase synchronization for a class of dynamical complex networks composed of multiinput multioutput pendulum-like systems with time-varying coupling delays is investigated. The problem of the global phase synchronization for the complex networks is equivalent to the problem of the asymptotical stability for the corresponding error dynamical networks. For reducing the conservation, no linearization technique is involved, but by Kronecker product, the problem of the asymptotical stability of the high dimensional error dynamical networks is reduced to the same problem of a class of low dimensional error systems. The delay-dependent criteria guaranteeing global asymptotical stability for the error dynamical complex networks in terms of Liner Matrix Inequalities (LMIs are derived based on free-weighting matrices technique and Lyapunov function. According to the convex characterization, a simple criterion is proposed. A numerical example is provided to demonstrate the effectiveness of the proposed results.

  17. Bacterial Tubulins A and B Exhibit Polarized Growth, Mixed-Polarity Bundling, and Destabilization by GTP Hydrolysis.

    Science.gov (United States)

    Díaz-Celis, César; Risca, Viviana I; Hurtado, Felipe; Polka, Jessica K; Hansen, Scott D; Maturana, Daniel; Lagos, Rosalba; Mullins, R Dyche; Monasterio, Octavio

    2017-10-01

    Bacteria of the genus Prosthecobacter express homologs of eukaryotic α- and β-tubulin, called BtubA and BtubB (BtubA/B), that have been observed to assemble into filaments in the presence of GTP. BtubA/B polymers are proposed to be composed in vitro by two to six protofilaments in contrast to that in vivo , where they have been reported to form 5-protofilament tubes named bacterial microtubules (bMTs). The btubAB genes likely entered the Prosthecobacter lineage via horizontal gene transfer and may be derived from an early ancestor of the modern eukaryotic microtubule (MT). Previous biochemical studies revealed that BtubA/B polymerization is reversible and that BtubA/B folding does not require chaperones. To better understand BtubA/B filament behavior and gain insight into the evolution of microtubule dynamics, we characterized in vitro BtubA/B assembly using a combination of polymerization kinetics assays and microscopy. Like eukaryotic microtubules, BtubA/B filaments exhibit polarized growth with different assembly rates at each end. GTP hydrolysis stimulated by BtubA/B polymerization drives a stochastic mechanism of filament disassembly that occurs via polymer breakage and/or fast continuous depolymerization. We also observed treadmilling (continuous addition and loss of subunits at opposite ends) of BtubA/B filament fragments. Unlike MTs, polymerization of BtubA/B requires KCl, which reduces the critical concentration for BtubA/B assembly and induces it to form stable mixed-orientation bundles in the absence of any additional BtubA/B-binding proteins. The complex dynamics that we observe in stabilized and unstabilized BtubA/B filaments may reflect common properties of an ancestral eukaryotic tubulin polymer. IMPORTANCE Microtubules are polymers within all eukaryotic cells that perform critical functions; they segregate chromosomes, organize intracellular transport, and support the flagella. These functions rely on the remarkable range of tunable dynamic

  18. Microtubule-Destabilizing Agents: Structural and Mechanistic Insights from the Interaction of Colchicine and Vinblastine with Tubulin

    Science.gov (United States)

    Gigant, B.; Cormier, A.; Dorléans, A.; Ravelli, R. B. G.; Knossow, M.

    Microtubules (MTs) are dynamic structures of the eukaryotic cytoskeleton that, during cell division, form the mitotic spindle. Perturbing them leads to mitotic arrest and ultimately to cell death. Consistently, MTs and their building block, αβ tubulin, are one of the best characterized targets in anti-cancer chemotherapy. Drugs that interfere with MTs either stabilize or destabilize them. The latter class is the subject of this review. These ligands bind to the colchicine site or to the vinca domain, two distinct sites located at a distance from each other on tubulin. Nevertheless the effects of both classes of ligands share a common theme, they prevent the formation of MT specific contacts, therefore triggering their disassembly.

  19. Nonlinear Coupled Dynamics of a Rod Fastening Rotor under Rub-Impact and Initial Permanent Deflection

    Directory of Open Access Journals (Sweden)

    Liang Hu

    2016-10-01

    Full Text Available A nonlinear coupled dynamic model of a rod fastening rotor under rub-impact and initial permanent deflection was developed in this paper. The governing motion equation was derived by the D’Alembert principle considering the contact characteristic between disks, nonlinear oil-film force, rub-impact force, unbalance mass, etc. The contact effects between disks was modeled as a flexural spring with cubical nonlinear stiffness. The coupled nonlinear dynamic phenomena of the rub-impact rod fastening rotor bearing system with initial permanent deflection were investigated by the fourth-order Runge-Kutta method. Bifurcation diagram, vibration waveform, frequency spectrum, shaft orbit and Poincaré map are used to illustrate the rich diversity of the system response with complicated dynamics. The studies indicate that the coupled dynamic responses of the rod fastening rotor bearing system under rub-impact and initial permanent deflection exhibit a rich nonlinear dynamic diversity, synchronous periodic-1 motion, multiple periodic motion, quasi-periodic motion and chaotic motion can be observed under certain conditions. Larger radial stiffness of the stator will simplify the system motion and make the oil whirl weaker or even disappear at a certain rotating speed. With the increase of initial permanent deflection length, the instability speed of the system gradually rises, and the chaotic motion region gets smaller and smaller. The corresponding results can provide guidance for the fault diagnosis of a rub-impact rod fastening rotor with initial permanent deflection and contribute to the further understanding of the nonlinear dynamic characteristics of the rod fastening rotor bearing system.

  20. Ligand-induced dynamical change of G-protein-coupled receptor revealed by neutron scattering

    Science.gov (United States)

    Shrestha, Utsab R.; Bhowmik, Debsindhu; Mamontov, Eugene; Chu, Xiang-Qiang

    Light activation of the visual G-protein-coupled receptor rhodopsin leads to the significant change in protein conformation and structural fluctuations, which further activates the cognate G-protein (transducin) and initiates the biological signaling. In this work, we studied the rhodopsin activation dynamics using state-of-the-art neutron scattering technique. Our quasi-elastic neutron scattering (QENS) results revealed a broadly distributed relaxation rate of the hydrogen atom in rhodopsin on the picosecond to nanosecond timescale (beta-relaxation region), which is crucial for the protein function. Furthermore, the application of mode-coupling theory to the QENS analysis uncovers the subtle changes in rhodopsin dynamics due to the retinal cofactor. Comparing the dynamics of the ligand-free apoprotein, opsin versus the dark-state rhodopsin, removal of the retinal cofactor increases the relaxation time in the beta-relaxation region, which is due to the possible open conformation. Moreover, we utilized the concept of free-energy landscape to explain our results for the dark-state rhodopsin and opsin dynamics, which can be further applied to other GPCR systems to interpret various dynamic behaviors in ligand-bound and ligand-free protein.

  1. Nonlinear dynamics of a flexible rotor supported by turbulent journal bearings with couple stress fluid

    International Nuclear Information System (INIS)

    Lo, C.-Y.; Chang-Jian, C.-W.

    2008-01-01

    This study presents a dynamic analysis of a rotor supported by two turbulent flow model journal bearings and lubricated with couple stress fluid under nonlinear suspension. The dynamics of the rotor center and bearing center is studied. The dynamic equations are solved using the Runge-Kutta method. The analysis methods employed in this study is inclusive of the dynamic trajectories of the rotor center and bearing center, power spectra, Poincare maps and bifurcation diagrams. The maximum Lyapunov exponent analysis is also used to identify the onset of chaotic motion. The results show that the values of dimensionless parameters l* strongly influence dynamic motions of bearing and rotor centre. It is found that couple stress fluid improve the stability of the system when l* > 0.4 even if the flow of this system is turbulent. We also demonstrated that the dimensionless rotational speed ratios s and the dimensionless unbalance parameter β are also significant system parameters. The modeling results thus obtained by using the method proposed in this paper can be employed to predict the stability of the rotor-bearing system and the undesirable behavior of the rotor and bearing center can be avoided

  2. Relaxation dynamics of a quantum emitter resonantly coupled to a metal nanoparticle

    DEFF Research Database (Denmark)

    Nerkararyan, K. V.; Bozhevolnyi, S. I.

    2014-01-01

    consequence of this relaxation process is that the emission, being largely determined by the MNP, comes out with a substantial delay. A large number of system parameters in our analytical description opens new possibilities for controlling quantum emitter dynamics. (C) 2014 Optical Society of America......The presence of a metal nanoparticle (MNP) near a quantum dipole emitter, when a localized surface plasmon mode is excited via the resonant coupling with an excited quantum dipole, dramatically changes the relaxation dynamics: an exponential decay changes to step-like behavior. The main physical...

  3. Dynamics of a model of two delay-coupled relaxation oscillators

    Science.gov (United States)

    Ruelas, R. E.; Rand, R. H.

    2010-08-01

    This paper investigates the dynamics of a new model of two coupled relaxation oscillators. The model replaces the usual DDE (differential-delay equation) formulation with a discrete-time approach with jumps. Existence, bifurcation and stability of in-phase periodic motions is studied. Simple periodic motions, which involve exactly two jumps per period, are found to have large plateaus in parameter space. These plateaus are separated by regions of complicated dynamics, reminiscent of the Devil's Staircase. Stability of motions in the in-phase manifold are contrasted with stability of motions in the full phase space.

  4. Coupled Dynamics of a Rotor-Journal Bearing System Equipped with Thrust Bearings

    Directory of Open Access Journals (Sweden)

    Yu Lie

    1995-01-01

    Full Text Available The rotordynamic coefficients of fixed-pad thrust bearing are introduced and calculated by using the out-domain method, and a general analysis method is developed to investigate the coupled dynamics of a rotor equipped with journal and thrust bearings simultaneously. Considerations include the effects of static tilt parameters of the rotor on rotordynamic coefficients of thrust bearing and the action of thrust bearing on system dynamics. It is shown that thrust bearing changes the load distribution of journal bearings and the static deflection of the rotor and delays the instability of the system considerably in lateral shaft vibration.

  5. Dynamic Coupling and Allosteric Networks in the α Subunit of Heterotrimeric G Proteins.

    Science.gov (United States)

    Yao, Xin-Qiu; Malik, Rabia U; Griggs, Nicholas W; Skjærven, Lars; Traynor, John R; Sivaramakrishnan, Sivaraj; Grant, Barry J

    2016-02-26

    G protein α subunits cycle between active and inactive conformations to regulate a multitude of intracellular signaling cascades. Important structural transitions occurring during this cycle have been characterized from extensive crystallographic studies. However, the link between observed conformations and the allosteric regulation of binding events at distal sites critical for signaling through G proteins remain unclear. Here we describe molecular dynamics simulations, bioinformatics analysis, and experimental mutagenesis that identifies residues involved in mediating the allosteric coupling of receptor, nucleotide, and helical domain interfaces of Gαi. Most notably, we predict and characterize novel allosteric decoupling mutants, which display enhanced helical domain opening, increased rates of nucleotide exchange, and constitutive activity in the absence of receptor activation. Collectively, our results provide a framework for explaining how binding events and mutations can alter internal dynamic couplings critical for G protein function. © 2016 by The American Society for Biochemistry and Molecular Biology, Inc.

  6. Variational coupling between q-number and c-number dynamics

    International Nuclear Information System (INIS)

    Amaral, C.M. do; Joffily, S.

    1984-01-01

    The time dependent quantum variational principle for Hamiltonian operators, which contain real parameters and its time derivatives is generated. The consequent variational system is formed by a Schroedinger equation coupled to Lagrangian equations, where the Lagrangian is the spectation mean value of the parametrized Hamiltonian operator. This dynamics describes the interaction between a q-number sub-dynamics and a c-number one. In the zero order W.K.B. approximation, the variational system is reduced to a Hamilton-Jacobi like equation, coupled to a family of Lagrangian equations. The formal structure of the parametrized variational principle postulated in this paper, may be convenient as a starting point for the formal treatment of generalized semi-classical models. (Author) [pt

  7. Spin-Orbit Coupling Drives Femtosecond Nonadiabatic Dynamics in a Transition Metal Compound.

    Science.gov (United States)

    Carbery, William P; Verma, Archana; Turner, Daniel B

    2017-03-16

    Transient absorption measurements conducted using broadband, 6 fs laser pulses reveal unexpected femtosecond dynamics in the [IrBr 6 ] 2- model system. Vibrational spectra and the X-ray crystal structure indicate that these dynamics are not induced by a Jahn-Teller distortion, a type of conical intersection typically associated with the spectral features of transition metal compounds. Two-dimensional electronic spectra of [IrBr 6 ] 2- contain 23 cross peaks, which necessarily arise from spin-orbit coupling. Real-valued 2D spectra support a spectroscopic basis where strong nonadiabatic coupling, ascribed to multiple conical intersections, mediates rapid energy relaxation to the lowest-energy excited state. Subsequent analysis gives rise to a more generalized description of a conical intersection as a degeneracy between two adiabatic states having the same total angular momentum.

  8. Improved Regional Climate Model Simulation of Precipitation by a Dynamical Coupling to a Hydrology Model

    DEFF Research Database (Denmark)

    Larsen, Morten Andreas Dahl; Drews, Martin; Hesselbjerg Christensen, Jens

    convective precipitation systems. As a result climate model simulations let alone future projections of precipitation often exhibit substantial biases. Here we show that the dynamical coupling of a regional climate model to a detailed fully distributed hydrological model - including groundwater-, overland...... of local precipitation dynamics are seen for time scales of app. Seasonal duration and longer. We show that these results can be attributed to a more complete treatment of land surface feedbacks. The local scale effect on the atmosphere suggests that coupled high-resolution climate-hydrology models...... including a detailed 3D redistribution of sub- and land surface water have a significant potential for improving climate projections even diminishing the need for bias correction in climate-hydrology studies....

  9. Communication: Time-dependent optimized coupled-cluster method for multielectron dynamics

    Science.gov (United States)

    Sato, Takeshi; Pathak, Himadri; Orimo, Yuki; Ishikawa, Kenichi L.

    2018-02-01

    Time-dependent coupled-cluster method with time-varying orbital functions, called time-dependent optimized coupled-cluster (TD-OCC) method, is formulated for multielectron dynamics in an intense laser field. We have successfully derived the equations of motion for CC amplitudes and orthonormal orbital functions based on the real action functional, and implemented the method including double excitations (TD-OCCD) and double and triple excitations (TD-OCCDT) within the optimized active orbitals. The present method is size extensive and gauge invariant, a polynomial cost-scaling alternative to the time-dependent multiconfiguration self-consistent-field method. The first application of the TD-OCC method of intense-laser driven correlated electron dynamics in Ar atom is reported.

  10. Arm motion coupling during locomotion-like actions: An experimental study and a dynamic model

    Science.gov (United States)

    Shapkova, E.Yu; Terekhov, A.V.; Latash, M.L.

    2010-01-01

    We studied the coordination of arm movements in standing persons who performed an out-of-phase arm-swinging task while stepping in place or while standing. The subjects were instructed to stop one of the arms in response to an auditory signal while trying to keep the rest of the movement pattern unchanged. A significant increase was observed in the amplitude of the arm that continued swinging under both the stepping and standing conditions. This increase was similar between the right and left arms. A dynamic model was developed including two coupled non-linear van der Pol oscillators. We assumed that stopping an arm did not eliminate the coupling but introduced a new constraint. Within the model, superposition of two factors, a command to stop the ongoing movement of one arm and the coupling between the two oscillators, has been able to account for the observed effects. The model makes predictions for future experiments. PMID:21628725

  11. Real-time dynamic coupling of GPC-enhanced diffraction-limited focal spots

    Science.gov (United States)

    Villangca, Mark; Bañas, Andrew; Kopylov, Oleksii; Palima, Darwin; Glückstad, Jesper

    2015-03-01

    We have previously demonstrated on-demand dynamic coupling of an optically manipulated wave-guided optical waveguide (WOW) using diffractive techniques on a "point and shoot" approach. In this work, the generation of the coupling focal spots is done in real-time following the position of the WOW. Object-tracking routine has been added in the trapping program to get the position of the WOW. This approach allows continuous coupling of light through the WOWs which may be useful in some application. In addition, we include a GPC light shaper module in the holography setup to efficiently illuminate the spatial light modulator (SLM). The ability to switch from on-demand to continuous addressing with efficient illumination leverages our WOWs for potential applications in stimulation and nonlinear optics.

  12. Real-time Dynamic Coupling of GPC-enhanced Diffraction-limited Focal Spots

    DEFF Research Database (Denmark)

    Villangca, Mark Jayson; Bañas, Andrew Rafael; Kopylov, Oleksii

    2015-01-01

    We have previously demonstrated on-demand dynamic coupling of an optically manipulated wave-guided optical waveguide (WOW) using diffractive techniques on a “point and shoot” approach. In this work, the generation of the coupling focal spots is done in real-time following the position of the WOW....... Object-tracking routine has been added in the trapping program to get the position of the WOW. This approach allows continuous coupling of light through the WOWs which may be useful in some application. In addition, we include a GPC light shaper module in the holography setup to efficiently illuminate...... the spatial light modulator (SLM). The ability to switch from on-demand to continuous addressing with efficient illumination leverages our WOWs for potential applications in stimulation and nonlinear optics....

  13. Equilibrium dynamics of the Dean-Kawasaki equation: Mode-coupling theory and its extension

    Science.gov (United States)

    Kim, Bongsoo; Kawasaki, Kyozi; Jacquin, Hugo; van Wijland, Frédéric

    2014-01-01

    We extend a previously proposed field-theoretic self-consistent perturbation approach for the equilibrium dynamics of the Dean-Kawasaki equation presented in [Kim and Kawasaki, J. Stat. Mech. (2008) P02004, 10.1088/1742-5468/2008/02/P02004]. By taking terms missing in the latter analysis into account we arrive at a set of three new equations for correlation functions of the system. These correlations involve the density and its logarithm as local observables. Our new one-loop equations, which must carefully deal with the noninteracting Brownian gas theory, are more general than the historic mode-coupling one in that a further approximation corresponding to Gaussian density fluctuations leads back to the original mode-coupling equation for the density correlations alone. However, without performing any further approximation step, our set of three equations does not feature any ergodic-nonergodic transition, as opposed to the historical mode-coupling approach.

  14. Embedding complex hydrology in the regional climate system – Dynamic coupling across different modelling domains

    DEFF Research Database (Denmark)

    Butts, Michael; Drews, Martin; Larsen, Morten Andreas Dahl

    2014-01-01

    To improve our understanding of the impacts of feedback between the atmosphere and the terrestrial water cycle including groundwater and to improve the integration of water resource management modelling for climate adaption we have developed a dynamically coupled climate–hydrological modelling...... system. The OpenMI modelling interface is used to couple a comprehensive hydrological modelling system, MIKE SHE running on personal computers, and a regional climate modelling system, HIRHAM running on a high performance computing platform. The coupled model enables two-way interaction between...... the atmosphere and the groundwater via the land surface and can represent the lateral movement of water in both the surface and subsurface and their interactions, not normally accounted for in climate models. Meso-scale processes are important for climate in general and rainfall in particular. Hydrological...

  15. Expression of Ki-67, Oct-4, γ-tubulin and α-tubulin in human tooth development.

    Science.gov (United States)

    Kero, Darko; Novakovic, Josip; Vukojevic, Katarina; Petricevic, Josko; Kalibovic Govorko, Danijela; Biocina-Lukenda, Dolores; Saraga-Babic, Mirna

    2014-11-01

    To analyze factors controlling cell proliferation and differentiation, and appearance of primary cilia during the cap and bell stages of incisor or/and canine human enamel organs. Qualitative and quantitative analysis of proliferating Ki-67 positive cells and expression of γ-tubulin, α-tubulin and Oct-4 was immunohistochemically analyzed in the cap an bell stages of 10 developing human incisor and canine germs, 8-21 weeks old. During the analyzed period, ratio of Ki-67 positive cells changed in outer enamel epithelium from 48.86% to 24.52%, in inner enamel epithelium increased from 56.11% to 60.06% and then dropped to 44.24%. While in dental papilla proliferation first increased from 46.26% to 55.45%, and then dropped to 22.08%, a constant decrease of proliferation characterized enamel reticulum (from 46.26% to 15.49%). Strong cytoplasmic Oct-4 expression characterized epithelial parts of enamel organ, particularly the differentiating ameloblasts. During further development, Oct-4 expression shifted to both nuclear and cytoplasmic expression in mesenchymal tooth components. Primary cilia characterized most of the cells in developing enamel organ. While non-ciliated (proliferating) cells mainly contained two centrioles (γ-tubulin), the primary cilia (α-tubulin) were arising from basal bodies (γ-tubulin) of non-proliferating cells. We suggest that increase in cell proliferation enables growth of enamel organ, while its selective decrease leads to disintegration of some tooth parts. Drop of proliferation coincided with initiation of ameloblast and odontoblast differentiation. Additionally, cell differentiation was accompanied by increased expression of Oct-4 and probably by signalling via primary cilia, both regulating processes of cell proliferation and differentiation. Copyright © 2014 Elsevier Ltd. All rights reserved.

  16. Biophysical approaches to G protein-coupled receptors: Structure, function and dynamics

    Science.gov (United States)

    Chollet, André; Turcatti, Gerardo

    1999-05-01

    G protein-coupled receptors (GPCR) represent a large family of drug targets for which there is no high-resolution structural information. In order to understand the mechanisms of ligand recognition and receptor activation, there is a strong need for novel biophysical methods. In this Perspective we provide an overview of recent experimental approaches used to explore the molecular architecture and dynamics of GPCR and their interactions with ligands and G proteins using biophysical, non-crystallographic, methods.

  17. Hopf bifurcation in love dynamical models with nonlinear couples and time delays

    International Nuclear Information System (INIS)

    Liao Xiaofeng; Ran Jiouhong

    2007-01-01

    A love dynamical models with nonlinear couples and two delays is considered. Local stability of this model is studied by analyzing the associated characteristic transcendental equation. We find that the Hopf bifurcation occurs when the sum of the two delays varies and passes a sequence of critical values. The stability and direction of the Hopf bifurcation are determined by applying the normal form theory and the center manifold theorem. Numerical example is given to illustrate our results

  18. Generalized Courant-Snyder theory for coupled transverse dynamics of charged particles in electromagnetic focusing lattices

    Directory of Open Access Journals (Sweden)

    Hong Qin

    2009-06-01

    Full Text Available The Courant-Snyder theory gives a complete description of the uncoupled transverse dynamics of charged particles in electromagnetic focusing lattices. In this paper, the Courant-Snyder theory is generalized to the case of coupled transverse dynamics with two degrees of freedom. The generalized theory has the same structure as the original Courant-Snyder theory for one degree of freedom. The four basic components of the original Courant-Snyder theory, i.e., the envelope equation, phase advance, transfer matrix, and the Courant-Snyder invariant, all have their counterparts, with remarkably similar expressions, in the generalized theory presented here. In the generalized theory, the envelope function is generalized into an envelope matrix, and the envelope equation becomes a matrix envelope equation with matrix operations that are noncommutative. The generalized theory gives a new parametrization of the 4D symplectic transfer matrix that has the same structure as the parametrization of the 2D symplectic transfer matrix in the original Courant-Snyder theory. All of the parameters used in the generalized Courant-Snyder theory correspond to physical quantities of importance, and this parametrization can provide a valuable framework for accelerator design and particle simulation studies. A time-dependent canonical transformation is used to develop the generalized Courant-Snyder theory. Applications of the new theory to strongly and weakly coupled dynamics are given. It is shown that the stability of coupled dynamics can be determined by the generalized phase advance developed. Two stability criteria are given, which recover the known results about sum and difference resonances in the weakly coupled limit.

  19. Relaxation dynamics and coherent energy exchange in coupled vibration-cavity polaritons (Conference Presentation)

    Science.gov (United States)

    Simpkins, Blake S.; Fears, Kenan P.; Dressick, Walter J.; Dunkelberger, Adam D.; Spann, Bryan T.; Owrutsky, Jeffrey C.

    2016-09-01

    Coherent coupling between an optical transition and confined optical mode have been investigated for electronic-state transitions, however, only very recently have vibrational transitions been considered. Here, we demonstrate both static and dynamic results for vibrational bands strongly coupled to optical cavities. We experimentally and numerically describe strong coupling between a Fabry-Pérot cavity and carbonyl stretch ( 1730 cm 1) in poly-methylmethacrylate and provide evidence that the mixed-states are immune to inhomogeneous broadening. We investigate strong and weak coupling regimes through examination of cavities loaded with varying concentrations of a urethane monomer. Rabi splittings are in excellent agreement with an analytical description using no fitting parameters. Ultrafast pump-probe measurements reveal transient absorption signals over a frequency range well-separated from the vibrational band, as well as drastically modified relaxation rates. We speculate these modified kinetics are a consequence of the energy proximity between the vibration-cavity polariton modes and excited state transitions and that polaritons offer an alternative relaxation path for vibrational excitations. Varying the polariton energies by angle-tuning yields transient results consistent with this hypothesis. Furthermore, Rabi oscillations, or quantum beats, are observed at early times and we see evidence that these coherent vibration-cavity polariton excitations impact excited state population through cavity losses. Together, these results indicate that cavity coupling may be used to influence both excitation and relaxation rates of vibrations. Opening the field of polaritonic coupling to vibrational species promises to be a rich arena amenable to a wide variety of infrared-active bonds that can be studied in steady state and dynamically.

  20. Dynamics of AV coupling during human atrial fibrillation: role of atrial rate.

    Science.gov (United States)

    Masè, M; Marini, M; Disertori, M; Ravelli, F

    2015-07-01

    The causal relationship between atrial and ventricular activities during human atrial fibrillation (AF) is poorly understood. This study analyzed the effects of an increase in atrial rate on the link between atrial and ventricular activities during AF. Atrial and ventricular time series were determined in 14 patients during the spontaneous acceleration of the atrial rhythm at AF onset. The dynamic relationship between atrial and ventricular activities was quantified in terms of atrioventricular (AV) coupling by AV synchrogram analysis. The technique identified n:m coupling patterns (n atrial beats in m ventricular cycles), quantifying their percentage, maximal length, and conduction ratio (= m/n). Simulations with a difference-equation AV model were performed to correlate the observed dynamics to specific atrial/nodal properties. The atrial rate increase significantly affected AV coupling and ventricular response during AF. The shortening of atrial intervals from 185 ± 32 to 165 ± 24 ms (P AV patterns with progressively decreasing m/n ratios (from conduction ratio = 0.34 ± 0.09 to 0.29 ± 0.08, P AV block and coupling instability at higher atrial rates were associated with increased ventricular interval variability (from 123 ± 52 to 133 ± 55 ms, P AV pattern transitions and coupling instability in patients were predicted, assuming the filtering of high-rate irregular atrial beats by the slow recovery of nodal excitability. These results support the role of atrial rate in determining AV coupling and ventricular response and may have implications for rate control in AF. Copyright © 2015 the American Physiological Society.

  1. Computation of three-dimensional multiphase flow dynamics by Fully-Coupled Immersed Flow (FCIF) solver

    Science.gov (United States)

    Miao, Sha; Hendrickson, Kelli; Liu, Yuming

    2017-12-01

    This work presents a Fully-Coupled Immersed Flow (FCIF) solver for the three-dimensional simulation of fluid-fluid interaction by coupling two distinct flow solvers using an Immersed Boundary (IB) method. The FCIF solver captures dynamic interactions between two fluids with disparate flow properties, while retaining the desirable simplicity of non-boundary-conforming grids. For illustration, we couple an IB-based unsteady Reynolds Averaged Navier Stokes (uRANS) simulator with a depth-integrated (long-wave) solver for the application of slug development with turbulent gas and laminar liquid. We perform a series of validations including turbulent/laminar flows over prescribed wavy boundaries and freely-evolving viscous fluids. These confirm the effectiveness and accuracy of both one-way and two-way coupling in the FCIF solver. Finally, we present a simulation example of the evolution from a stratified turbulent/laminar flow through the initiation of a slug that nearly bridges the channel. The results show both the interfacial wave dynamics excited by the turbulent gas forcing and the influence of the liquid on the gas turbulence. These results demonstrate that the FCIF solver effectively captures the essential physics of gas-liquid interaction and can serve as a useful tool for the mechanistic study of slug generation in two-phase gas/liquid flows in channels and pipes.

  2. A multiscale model on hospital infections coupling macro and micro dynamics

    Science.gov (United States)

    Wang, Xia; Tang, Sanyi

    2017-09-01

    A multiscale model of hospital infections coupling the micro model of the growth of bacteria and the macro model describing the transmission of the bacteria among patients and health care workers (HCWs) was established to investigate the effects of antibiotic treatment on the transmission of the bacteria among patients and HCWs. The model was formulated by viewing the transmission rate from infected patients to HCWs and the shedding rate of bacteria from infected patients to the environment as saturated functions of the within-host bacterial load. The equilibria and the basic reproduction number of the coupled system were studied, and the global dynamics of the disease free equilibrium and the endemic equilibrium were analyzed in detail by constructing two Lyapunov functions. Furthermore, effects of drug treatment in the within-host model on the basic reproduction number and the dynamics of the coupled model were studied by coupling a pharmacokinetics model with the within-host model. Sensitive analysis indicated that the growth rate of the bacteria, the maximum drug effect and the dosing interval are the three most sensitive parameters contributing to the basic reproduction number. Thus, adopting ;wonder; drugs to decrease the growth rate of the bacteria or to increase the drug's effect is the most effective measure but changing the dosage regime is also effective. A quantitative criterion of how to choose the best dosage regimen can also be obtained from numerical results.

  3. Harsh parenting, child behavior problems, and the dynamic coupling of parents' and children's positive behaviors.

    Science.gov (United States)

    Lunkenheimer, Erika; Ram, Nilam; Skowron, Elizabeth A; Yin, Peifeng

    2017-09-01

    We examined self-reported maternal and paternal harsh parenting (HP) and its effect on the moment-to-moment dynamic coupling of maternal autonomy support and children's positive, autonomous behavior. This positive behavior coupling was measured via hidden Markov models as the likelihood of transitions into specific positive dyadic states in real time. We also examined whether positive behavior coupling, in turn, predicted later HP and child behavior problems. Children (N = 96; age = 3.5 years at Time 1) and mothers completed structured clean-up and puzzle tasks in the laboratory. Mothers' and fathers' HP was associated with children's being less likely to respond positively to maternal autonomy support; mothers' HP was also associated with mothers' being less likely to respond positively to children's autonomous behavior. When mothers responded to children's autonomous behavior with greater autonomy support, children showed fewer externalizing and internalizing problems over time and mothers showed less HP over time. These results were unique to the dynamic coupling of maternal autonomy support and children's autonomous behavior: The overall amount of these positive behaviors did not similarly predict reduced problems. Findings suggest that HP in the family system compromises the coregulation of positive behavior between mother and child and that improving mothers' and children's abilities to respond optimally to one another's autonomy-supportive behaviors may reduce HP and child behavior problems over time. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

  4. Sexual risk for HIV among gay male couples: a longitudinal study of the impact of relationship dynamics.

    Science.gov (United States)

    Darbes, Lynne A; Chakravarty, Deepalika; Neilands, Torsten B; Beougher, Sean C; Hoff, Colleen C

    2014-01-01

    While the relationship context itself is increasingly being examined to understand sexual risk behavior among gay male couples, few studies have examined relationship dynamics and HIV risk longitudinally. We aimed to investigate relationship dynamics and psychosocial predictors of unprotected anal intercourse (UAI) with outside partners of serodiscordant or unknown HIV serostatus (UAIOUT) over time as well as UAI with primary partner in serodiscordant couples (UAIPP). We recruited a sample of 566 ethnically diverse, seroconcordant and serodiscordant couples and interviewed them six times over the course of 3 years. The surveys encompassed relationship dynamics between the partners and sexual behavior with primary and outside partners. We fit generalized linear mixed models for both the UAI outcomes with time and relationship dynamics as predictors while controlling for relationship length. Analyses of the longitudinal data revealed that, in both categories of couples, those with higher levels of positive relationship dynamics (e.g., commitment, satisfaction) were less likely to engage in UAIOUT. Higher investment in sexual agreement and communication were among the factors that significantly predicted less UAIOUT for seroconcordant couples, but not for the serodiscordant couples. For serodiscordant couples, greater levels of attachment and intimacy were associated with greater odds of UAIPP while increased HIV-specific social support was associated with lower odds of UAIPP. These results underscore the importance of creating and tailoring interventions for gay couples that help maintain and strengthen positive relationship dynamics as they have the potential to produce significant changes in HIV risk behavior and thereby in HIV transmission.

  5. Dynamically Coupled Food-web and Hydrodynamic Modeling with ADH-CASM

    Science.gov (United States)

    Piercy, C.; Swannack, T. M.

    2012-12-01

    Oysters and freshwater mussels are "ecological engineers," modifying the local water quality by filtering zooplankton and other suspended particulate matter from the water column and flow hydraulics by impinging on the near-bed flow environment. The success of sessile, benthic invertebrates such as oysters depends on environmental factors including but not limited to temperature, salinity, and flow regime. Typically food-web and other types of ecological models use flow and water quality data as direct input without regard to the feedback between the ecosystem and the physical environment. The USACE-ERDC has developed a coupled hydrodynamic-ecological modeling approach that dynamically couples a 2-D hydrodynamic and constituent transport model, Adaptive Hydraulics (ADH), with a bioenergetics food-web model, the Comprehensive Aquatics Systems Model (CASM), which captures the dynamic feedback between aquatic ecological systems and the environment. We present modeling results from restored oyster reefs in the Great Wicomico River on the western shore of the Chesapeake Bay, which quantify ecosystem services such as the influence of the benthic ecosystem on water quality. Preliminary results indicate that while the influence of oyster reefs on bulk flow dynamics is limited due to the localized influence of oyster reefs, large reefs and the associated benthic ecosystem can create measurable changes in the concentrations of nitrogen, phosphorus, and carbon in the areas around reefs. We also present a sensitivity analysis to quantify the relative sensitivity of the coupled ADH-CASM model to both hydrodynamic and ecological parameter choice.

  6. The coupling of fluids, dynamics, and controls on advanced architecture computers

    Science.gov (United States)

    Atwood, Christopher

    1995-01-01

    This grant provided for the demonstration of coupled controls, body dynamics, and fluids computations in a workstation cluster environment; and an investigation of the impact of peer-peer communication on flow solver performance and robustness. The findings of these investigations were documented in the conference articles.The attached publication, 'Towards Distributed Fluids/Controls Simulations', documents the solution and scaling of the coupled Navier-Stokes, Euler rigid-body dynamics, and state feedback control equations for a two-dimensional canard-wing. The poor scaling shown was due to serialized grid connectivity computation and Ethernet bandwidth limits. The scaling of a peer-to-peer communication flow code on an IBM SP-2 was also shown. The scaling of the code on the switched fabric-linked nodes was good, with a 2.4 percent loss due to communication of intergrid boundary point information. The code performance on 30 worker nodes was 1.7 (mu)s/point/iteration, or a factor of three over a Cray C-90 head. The attached paper, 'Nonlinear Fluid Computations in a Distributed Environment', documents the effect of several computational rate enhancing methods on convergence. For the cases shown, the highest throughput was achieved using boundary updates at each step, with the manager process performing communication tasks only. Constrained domain decomposition of the implicit fluid equations did not degrade the convergence rate or final solution. The scaling of a coupled body/fluid dynamics problem on an Ethernet-linked cluster was also shown.

  7. Coupled Motion of Contact Line on Nanoscale Chemically Heterogeneous Surfaces for Improved Bubble Dynamics in Boiling.

    Science.gov (United States)

    Jaikumar, Arvind; Kandlikar, Satish G

    2017-11-16

    We demonstrate that the contact line (CL) motion on energetically heterogeneous solid surfaces occurs in a coupled fashion as against the traditional staggered stick-slip motion. Introducing chemical inhomogeneities at nanoscale induces a local change in dynamic contact angles which manifests as a smooth and continuous motion of the CL. Nanoscale chemically inhomogeneous surfaces comprising of gold, palladium and nickel were generated on copper substrates to demonstrate the underlying CL dynamics. The spatial variations of chemical constituents were mapped using elemental display scanning electron microscope images. Further, the coupled and stick-slip motion was confirmed for a sliding water droplet on these surfaces, and then used in studying the pool boiling bubble dynamics of a single bubble from nucleation to departure. The coupled motion was seen to increase the CL velocity thereby increasing the contribution from transient conduction heat transfer. Consequently, a ~2X increase in the boiling critical heat flux (CHF) was observed. Enhancing the pool boiling performance by introducing nanoscale surface features is an attractive approach in many applications and this work provides a framework and understanding of the CL motion induced through the chemical inhomogeneity effects.

  8. Consistent temperature coupling with thermal fluctuations of smooth particle hydrodynamics and molecular dynamics.

    Directory of Open Access Journals (Sweden)

    Georg C Ganzenmüller

    Full Text Available We propose a thermodynamically consistent and energy-conserving temperature coupling scheme between the atomistic and the continuum domain. The coupling scheme links the two domains using the DPDE (Dissipative Particle Dynamics at constant Energy thermostat and is designed to handle strong temperature gradients across the atomistic/continuum domain interface. The fundamentally different definitions of temperature in the continuum and atomistic domain - internal energy and heat capacity versus particle velocity - are accounted for in a straightforward and conceptually intuitive way by the DPDE thermostat. We verify the here-proposed scheme using a fluid, which is simultaneously represented as a continuum using Smooth Particle Hydrodynamics, and as an atomistically resolved liquid using Molecular Dynamics. In the case of equilibrium contact between both domains, we show that the correct microscopic equilibrium properties of the atomistic fluid are obtained. As an example of a strong non-equilibrium situation, we consider the propagation of a steady shock-wave from the continuum domain into the atomistic domain, and show that the coupling scheme conserves both energy and shock-wave dynamics. To demonstrate the applicability of our scheme to real systems, we consider shock loading of a phospholipid bilayer immersed in water in a multi-scale simulation, an interesting topic of biological relevance.

  9. Consistent temperature coupling with thermal fluctuations of smooth particle hydrodynamics and molecular dynamics.

    Science.gov (United States)

    Ganzenmüller, Georg C; Hiermaier, Stefan; Steinhauser, Martin O

    2012-01-01

    We propose a thermodynamically consistent and energy-conserving temperature coupling scheme between the atomistic and the continuum domain. The coupling scheme links the two domains using the DPDE (Dissipative Particle Dynamics at constant Energy) thermostat and is designed to handle strong temperature gradients across the atomistic/continuum domain interface. The fundamentally different definitions of temperature in the continuum and atomistic domain - internal energy and heat capacity versus particle velocity - are accounted for in a straightforward and conceptually intuitive way by the DPDE thermostat. We verify the here-proposed scheme using a fluid, which is simultaneously represented as a continuum using Smooth Particle Hydrodynamics, and as an atomistically resolved liquid using Molecular Dynamics. In the case of equilibrium contact between both domains, we show that the correct microscopic equilibrium properties of the atomistic fluid are obtained. As an example of a strong non-equilibrium situation, we consider the propagation of a steady shock-wave from the continuum domain into the atomistic domain, and show that the coupling scheme conserves both energy and shock-wave dynamics. To demonstrate the applicability of our scheme to real systems, we consider shock loading of a phospholipid bilayer immersed in water in a multi-scale simulation, an interesting topic of biological relevance.

  10. Real-Time Tau Protein Detection by Sandwich-Based Piezoelectric Biosensing: Exploring Tubulin as a Mass Enhancer.

    Science.gov (United States)

    Li, Dujuan; Scarano, Simona; Lisi, Samuele; Palladino, Pasquale; Minunni, Maria

    2018-03-22

    Human tau protein is one of the most advanced and accepted biomarkers for AD and tauopathies diagnosis in general. In this work, a quartz crystal balance (QCM) immunosensor was developed for the detection of human tau protein in buffer and artificial cerebrospinal fluid (aCSF), through both direct and sandwich assays. Starting from a conventional immuno-based sandwich strategy, two monoclonal antibodies recognizing different epitopes of tau protein were used, achieving a detection limit for the direct assay in nanomolar range both in HBES-EP and aCSF. Afterward, for exploring alternative specific receptors as secondary recognition elements for tau protein biosensing, we tested tubulin and compared its behavior to a conventional secondary antibody in the sandwich assay. Tau-tubulin binding has shown an extended working range coupled to a signal improvement in comparison with the conventional secondary antibody-based approach, showing a dose-response trend at lower tau concentration than is usually investigated and closer to the physiological levels in the reference matrix for protein tau biomarker. Our results open up new and encouraging perspectives for the use of tubulin as an alternative receptor for tau protein with interesting features due to the possibility of taking advantage of its polymerization and reversible binding to this key hallmark of Alzheimer's disease.

  11. Dynamical coupling of electrons and ions in Xray-induced dynamics

    International Nuclear Information System (INIS)

    Saalmann, Ulf; Camacho, Abraham; Rost, Jan-Michael

    2015-01-01

    Photo-absorption from short and intense Xray pulses by a molecule or a cluster triggers a complicated electron and ion dynamics. Whereas the excitation process concerns largely core-shell electrons, there are various subsequent relaxation channels like electronic decays and ionic Coulomb explosion. We will discuss the interplay of those processes for molecular clusters and fullerenes. (paper)

  12. Coupled iterated map models of action potential dynamics in a one-dimensional cable of cardiac cells

    International Nuclear Information System (INIS)

    Wang Shihong; Xie Yuanfang; Qu Zhilin

    2008-01-01

    Low-dimensional iterated map models have been widely used to study action potential dynamics in isolated cardiac cells. Coupled iterated map models have also been widely used to investigate action potential propagation dynamics in one-dimensional (1D) coupled cardiac cells, however, these models are usually empirical and not carefully validated. In this study, we first developed two coupled iterated map models which are the standard forms of diffusively coupled maps and overcome the limitations of the previous models. We then determined the coupling strength and space constant by quantitatively comparing the 1D action potential duration profile from the coupled cardiac cell model described by differential equations with that of the coupled iterated map models. To further validate the coupled iterated map models, we compared the stability conditions of the spatially uniform state of the coupled iterated maps and those of the 1D ionic model and showed that the coupled iterated map model could well recapitulate the stability conditions, i.e. the spatially uniform state is stable unless the state is chaotic. Finally, we combined conduction into the developed coupled iterated map model to study the effects of coupling strength on wave stabilities and showed that the diffusive coupling between cardiac cells tends to suppress instabilities during reentry in a 1D ring and the onset of discordant alternans in a periodically paced 1D cable

  13. Chaotic itinerancy within the coupled dynamics between a physical body and neural oscillator networks.

    Science.gov (United States)

    Park, Jihoon; Mori, Hiroki; Okuyama, Yuji; Asada, Minoru

    2017-01-01

    Chaotic itinerancy is a phenomenon in which the state of a nonlinear dynamical system spontaneously explores and attracts certain states in a state space. From this perspective, the diverse behavior of animals and its spontaneous transitions lead to a complex coupled dynamical system, including a physical body and a brain. Herein, a series of simulations using different types of non-linear oscillator networks (i.e., regular, small-world, scale-free, random) with a musculoskeletal model (i.e., a snake-like robot) as a physical body are conducted to understand how the chaotic itinerancy of bodily behavior emerges from the coupled dynamics between the body and the brain. A behavior analysis (behavior clustering) and network analysis for the classified behavior are then applied. The former consists of feature vector extraction from the motions and classification of the movement patterns that emerged from the coupled dynamics. The network structures behind the classified movement patterns are revealed by estimating the "information networks" different from the given non-linear oscillator networks based on the transfer entropy which finds the information flow among neurons. The experimental results show that: (1) the number of movement patterns and their duration depend on the sensor ratio to control the balance of strength between the body and the brain dynamics and on the type of the given non-linear oscillator networks; and (2) two kinds of information networks are found behind two kinds movement patterns with different durations by utilizing the complex network measures, clustering coefficient and the shortest path length with a negative and a positive relationship with the duration periods of movement patterns. The current results seem promising for a future extension of the method to a more complicated body and environment. Several requirements are also discussed.

  14. Chaotic itinerancy within the coupled dynamics between a physical body and neural oscillator networks.

    Directory of Open Access Journals (Sweden)

    Jihoon Park

    Full Text Available Chaotic itinerancy is a phenomenon in which the state of a nonlinear dynamical system spontaneously explores and attracts certain states in a state space. From this perspective, the diverse behavior of animals and its spontaneous transitions lead to a complex coupled dynamical system, including a physical body and a brain. Herein, a series of simulations using different types of non-linear oscillator networks (i.e., regular, small-world, scale-free, random with a musculoskeletal model (i.e., a snake-like robot as a physical body are conducted to understand how the chaotic itinerancy of bodily behavior emerges from the coupled dynamics between the body and the brain. A behavior analysis (behavior clustering and network analysis for the classified behavior are then applied. The former consists of feature vector extraction from the motions and classification of the movement patterns that emerged from the coupled dynamics. The network structures behind the classified movement patterns are revealed by estimating the "information networks" different from the given non-linear oscillator networks based on the transfer entropy which finds the information flow among neurons. The experimental results show that: (1 the number of movement patterns and their duration depend on the sensor ratio to control the balance of strength between the body and the brain dynamics and on the type of the given non-linear oscillator networks; and (2 two kinds of information networks are found behind two kinds movement patterns with different durations by utilizing the complex network measures, clustering coefficient and the shortest path length with a negative and a positive relationship with the duration periods of movement patterns. The current results seem promising for a future extension of the method to a more complicated body and environment. Several requirements are also discussed.

  15. Stretched exponential dynamics of coupled logistic maps on a small-world network

    Science.gov (United States)

    Mahajan, Ashwini V.; Gade, Prashant M.

    2018-02-01

    We investigate the dynamic phase transition from partially or fully arrested state to spatiotemporal chaos in coupled logistic maps on a small-world network. Persistence of local variables in a coarse grained sense acts as an excellent order parameter to study this transition. We investigate the phase diagram by varying coupling strength and small-world rewiring probability p of nonlocal connections. The persistent region is a compact region bounded by two critical lines where band-merging crisis occurs. On one critical line, the persistent sites shows a nonexponential (stretched exponential) decay for all p while for another one, it shows crossover from nonexponential to exponential behavior as p → 1 . With an effectively antiferromagnetic coupling, coupling to two neighbors on either side leads to exchange frustration. Apart from exchange frustration, non-bipartite topology and nonlocal couplings in a small-world network could be a reason for anomalous relaxation. The distribution of trap times in asymptotic regime has a long tail as well. The dependence of temporal evolution of persistence on initial conditions is studied and a scaling form for persistence after waiting time is proposed. We present a simple possible model for this behavior.

  16. Spatio-temporal dynamics induced by competing instabilities in two asymmetrically coupled nonlinear evolution equations

    Energy Technology Data Exchange (ETDEWEB)

    Schüler, D.; Alonso, S.; Bär, M. [Physikalisch-Technische Bundesanstalt, Abbestrasse 2-12, 10587 Berlin (Germany); Torcini, A. [CNR-Consiglio Nazionale delle Ricerche, Istituto dei Sistemi Complessi - Via Madonna del Piano 10, I-50019 Sesto Fiorentino (Italy); INFN Sez. Firenze, via Sansone 1, I-50019 Sesto Fiorentino (Italy)

    2014-12-15

    Pattern formation often occurs in spatially extended physical, biological, and chemical systems due to an instability of the homogeneous steady state. The type of the instability usually prescribes the resulting spatio-temporal patterns and their characteristic length scales. However, patterns resulting from the simultaneous occurrence of instabilities cannot be expected to be simple superposition of the patterns associated with the considered instabilities. To address this issue, we design two simple models composed by two asymmetrically coupled equations of non-conserved (Swift-Hohenberg equations) or conserved (Cahn-Hilliard equations) order parameters with different characteristic wave lengths. The patterns arising in these systems range from coexisting static patterns of different wavelengths to traveling waves. A linear stability analysis allows to derive a two parameter phase diagram for the studied models, in particular, revealing for the Swift-Hohenberg equations, a co-dimension two bifurcation point of Turing and wave instability and a region of coexistence of stationary and traveling patterns. The nonlinear dynamics of the coupled evolution equations is investigated by performing accurate numerical simulations. These reveal more complex patterns, ranging from traveling waves with embedded Turing patterns domains to spatio-temporal chaos, and a wide hysteretic region, where waves or Turing patterns coexist. For the coupled Cahn-Hilliard equations the presence of a weak coupling is sufficient to arrest the coarsening process and to lead to the emergence of purely periodic patterns. The final states are characterized by domains with a characteristic length, which diverges logarithmically with the coupling amplitude.

  17. Adaptive spacetime method using Riemann jump conditions for coupled atomistic-continuum dynamics

    Science.gov (United States)

    Kraczek, B.; Miller, S. T.; Haber, R. B.; Johnson, D. D.

    2010-03-01

    We combine the Spacetime Discontinuous Galerkin (SDG) method for elastodynamics with the mathematically consistent Atomistic Discontinuous Galerkin (ADG) method in a new scheme that concurrently couples continuum and atomistic models of dynamic response in solids. The formulation couples non-overlapping continuum and atomistic models across sharp interfaces by weakly enforcing jump conditions, for both momentum balance and kinematic compatibility, using Riemann values to preserve the characteristic structure of the underlying hyperbolic system. Momentum balances to within machine-precision accuracy over every element, on each atom, and over the coupled system, with small, controllable energy dissipation in the continuum region that ensures numerical stability. When implemented on suitable unstructured spacetime grids, the continuum SDG model offers linear computational complexity in the number of elements and powerful adaptive analysis capabilities that readily bridge between atomic and continuum scales in both space and time. A special trace operator for the atomic velocities and an associated atomistic traction field enter the jump conditions at the coupling interface. The trace operator depends on parameters that specify, at the scale of the atomic spacing, the position of the coupling interface relative to the atoms. In a key finding, we demonstrate that optimizing these parameters suppresses spurious reflections at the coupling interface without the use of non-physical damping or special boundary conditions. We formulate the implicit SDG-ADG coupling scheme in up to three spatial dimensions, and describe an efficient iterative solution scheme that outperforms common explicit schemes, such as the Velocity Verlet integrator. Numerical examples, in 1d×time and employing both linear and nonlinear potentials, demonstrate the performance of the SDG-ADG method and show how adaptive spacetime meshing reconciles disparate time steps and resolves atomic-scale signals

  18. Dark energy with a gradient coupling to the dark matter fluid: cosmological dynamics and structure formation

    Science.gov (United States)

    Dutta, Jibitesh; Khyllep, Wompherdeiki; Tamanini, Nicola

    2018-01-01

    We consider scalar field models of dark energy interacting with dark matter through a coupling proportional to the contraction of the four-derivative of the scalar field with the four-velocity of the dark matter fluid. The coupling is realized at the Lagrangian level employing the formalism of Scalar-Fluid theories, which use a consistent Lagrangian approach for relativistic fluid to describe dark matter. This framework produces fully covariant field equations, from which we can derive unequivocal cosmological equations at both background and linear perturbations levels. The background evolution is analyzed in detail applying dynamical systems techniques, which allow us to find the complete asymptotic behavior of the universe given any set of model parameters and initial conditions. Furthermore we study linear cosmological perturbations investigating the growth of cosmic structures within the quasi-static approximation. We find that these interacting dark energy models give rise to interesting phenomenological dynamics, including late-time transitions from dark matter to dark energy domination, matter and accelerated scaling solutions and dynamical crossing of the phantom barrier. Moreover we obtain possible deviations from standard ΛCDM behavior at the linear perturbations level, which have an impact on the dynamics of structure formation and might provide characteristic observational signatures.

  19. From localization to anomalous diffusion in the dynamics of coupled kicked rotors

    Science.gov (United States)

    Notarnicola, Simone; Iemini, Fernando; Rossini, Davide; Fazio, Rosario; Silva, Alessandro; Russomanno, Angelo

    2018-02-01

    We study the effect of many-body quantum interference on the dynamics of coupled periodically kicked systems whose classical dynamics is chaotic and shows an unbounded energy increase. We specifically focus on an N -coupled kicked rotors model: We find that the interplay of quantumness and interactions dramatically modifies the system dynamics, inducing a transition between energy saturation and unbounded energy increase. We discuss this phenomenon both numerically and analytically through a mapping onto an N -dimensional Anderson model. The thermodynamic limit N →∞ , in particular, always shows unbounded energy growth. This dynamical delocalization is genuinely quantum and very different from the classical one: Using a mean-field approximation, we see that the system self-organizes so that the energy per site increases in time as a power law with exponent smaller than 1. This wealth of phenomena is a genuine effect of quantum interference: The classical system for N ≥2 always behaves ergodically with an energy per site linearly increasing in time. Our results show that quantum mechanics can deeply alter the regularity or ergodicity properties of a many-body-driven system.

  20. Bifurcation Analysis on Phase-Amplitude Cross-Frequency Coupling in Neural Networks with Dynamic Synapses

    Science.gov (United States)

    Sase, Takumi; Katori, Yuichi; Komuro, Motomasa; Aihara, Kazuyuki

    2017-01-01

    We investigate a discrete-time network model composed of excitatory and inhibitory neurons and dynamic synapses with the aim at revealing dynamical properties behind oscillatory phenomena possibly related to brain functions. We use a stochastic neural network model to derive the corresponding macroscopic mean field dynamics, and subsequently analyze the dynamical properties of the network. In addition to slow and fast oscillations arising from excitatory and inhibitory networks, respectively, we show that the interaction between these two networks generates phase-amplitude cross-frequency coupling (CFC), in which multiple different frequency components coexist and the amplitude of the fast oscillation is modulated by the phase of the slow oscillation. Furthermore, we clarify the detailed properties of the oscillatory phenomena by applying the bifurcation analysis to the mean field model, and accordingly show that the intermittent and the continuous CFCs can be characterized by an aperiodic orbit on a closed curve and one on a torus, respectively. These two CFC modes switch depending on the coupling strength from the excitatory to inhibitory networks, via the saddle-node cycle bifurcation of a one-dimensional torus in map (MT1SNC), and may be associated with the function of multi-item representation. We believe that the present model might have potential for studying possible functional roles of phase-amplitude CFC in the cerebral cortex. PMID:28424606

  1. Drosophila melanogaster mini spindles TOG3 utilizes unique structural elements to promote domain stability and maintain a TOG1- and TOG2-like tubulin-binding surface.

    Science.gov (United States)

    Howard, Amy E; Fox, Jaime C; Slep, Kevin C

    2015-04-17

    Microtubule-associated proteins regulate microtubule (MT) dynamics spatially and temporally, which is essential for proper formation of the bipolar mitotic spindle. The XMAP215 family is comprised of conserved microtubule-associated proteins that use an array of tubulin-binding tumor overexpressed gene (TOG) domains, consisting of six (A-F) Huntingtin, elongation factor 3, protein phosphatase 2A, target of rapamycin (HEAT) repeats, to robustly increase MT plus-end polymerization rates. Recent work showed that TOG domains have differentially conserved architectures across the array, with implications for position-dependent TOG domain tubulin binding activities and function within the XMAP215 MT polymerization mechanism. Although TOG domains 1, 2, and 4 are well described, structural and mechanistic information characterizing TOG domains 3 and 5 is outstanding. Here, we present the structure and characterization of Drosophila melanogaster Mini spindles (Msps) TOG3. Msps TOG3 has two unique features as follows: the first is a C-terminal tail that stabilizes the ultimate four HEAT repeats (HRs), and the second is a unique architecture in HR B. Structural alignments of TOG3 with other TOG domain structures show that the architecture of TOG3 is most similar to TOG domains 1 and 2 and diverges from TOG4. Docking TOG3 onto recently solved Stu2 TOG1· and TOG2·tubulin complex structures suggests that TOG3 uses similarly conserved tubulin-binding intra-HEAT loop residues to engage α- and β-tubulin. This indicates that TOG3 has maintained a TOG1- and TOG2-like TOG-tubulin binding mode despite structural divergence. The similarity of TOG domains 1-3 and the divergence of TOG4 suggest that a TOG domain array with polarized structural diversity may play a key mechanistic role in XMAP215-dependent MT polymerization activity. © 2015 by The American Society for Biochemistry and Molecular Biology, Inc.

  2. Dynamic Modeling and Control of Electromechanical Coupling for Mechanical Elastic Energy Storage System

    Directory of Open Access Journals (Sweden)

    Yang Yu

    2013-01-01

    Full Text Available The structural scheme of mechanical elastic energy storage (MEES system served by permanent magnet synchronous motor (PMSM and bidirectional converters is designed. The aim of the research is to model and control the complex electromechanical system. The mechanical device of the complex system is considered as a node in generalized coordinate system, the terse nonlinear dynamic model of electromechanical coupling for the electromechanical system is constructed through Lagrange-Maxwell energy method, and the detailed deduction of the mathematical model is presented in the paper. The theory of direct feedback linearization (DFL is applied to decouple the nonlinear dynamic model and convert the developed model from nonlinear to linear. The optimal control theory is utilized to accomplish speed tracking control for the linearized system. The simulation results in three different cases show that the proposed nonlinear dynamic model of MEES system is correct; the designed algorithm has a better control performance in contrast with the conventional PI control.

  3. Physics and Dynamics Coupling Across Scales in the Next Generation CESM. Final Report

    Energy Technology Data Exchange (ETDEWEB)

    Bacmeister, Julio T. [University Corporation for Atmospheric Research (UCAR), Boulder, CO (United States)

    2015-06-12

    This project examines physics/dynamics coupling, that is, exchange of meteorological profiles and tendencies between an atmospheric model’s dynamical core and its various physics parameterizations. Most model physics parameterizations seek to represent processes that occur on scales smaller than the smallest scale resolved by the dynamical core. As a consequence a key conceptual aspect of parameterizations is an assumption about the subgrid variability of quantities such as temperature, humidity or vertical wind. Most existing parameterizations of processes such as turbulence, convection, cloud, and gravity wave drag make relatively ad hoc assumptions about this variability and are forced to introduce empirical parameters, i.e., “tuning knobs” to obtain realistic simulations. These knobs make systematic dependences on model grid size difficult to quantify.

  4. Symbolic dynamics and synchronization of coupled map networks with multiple delays

    International Nuclear Information System (INIS)

    Atay, Fatihcan M.; Jalan, Sarika; Jost, Juergen

    2010-01-01

    We use symbolic dynamics to study discrete-time dynamical systems with multiple time delays. We exploit the concept of avoiding sets, which arise from specific non-generating partitions of the phase space and restrict the occurrence of certain symbol sequences related to the characteristics of the dynamics. In particular, we show that the resulting forbidden sequences are closely related to the time delays in the system. We present two applications to coupled map lattices, namely (1) detecting synchronization and (2) determining unknown values of the transmission delays in networks with possibly directed and weighted connections and measurement noise. The method is applicable to multi-dimensional as well as set-valued maps, and to networks with time-varying delays and connection structure.

  5. Family planning decisions, perceptions and gender dynamics among couples in Mwanza, Tanzania: a qualitative study.

    Science.gov (United States)

    Mosha, Idda; Ruben, Ruerd; Kakoko, Deodatus

    2013-05-30

    Contraceptive use is low in developing countries which are still largely driven by male dominated culture and patriarchal values. This study explored family planning (FP) decisions, perceptions and gender dynamics among couples in Mwanza region of Tanzania. Twelve focus group discussions and six in-depth interviews were used to collect information from married or cohabiting males and females aged 18-49. The participants were purposively selected. Qualitative methods were used to explore family planning decisions, perceptions and gender dynamics among couples. A guide with questions related to family planning perceptions, decisions and gender dynamics was used. The discussions and interviews were tape-recorded, transcribed verbatim and analyzed manually and subjected to content analysis. Four themes emerged during the study. First, "risks and costs" which refer to the side effects of FP methods and the treatment of side -effects as well as the costs inherit in being labeled as an unfaithful spouse. Second, "male involvement" as men showed little interest in participating in family planning issues. However, the same men were mentioned as key decision-makers even on the number of children a couple should have and the child spacing of these children. Third, "gender relations and communication" as participants indicated that few women participated in decision-making on family planning and the number of children to have. Fourth, "urban-rural differences", life in rural favoring having more children than urban areas therefore, the value of children depended on the place of residence. Family Planning programs should adapt the promotion of communication as well as joint decision-making on FP among couples as a strategy aimed at enhancing FP use.

  6. Dynamic Coupling Analysis of Urbanization and Water Resource Utilization Systems in China

    Directory of Open Access Journals (Sweden)

    Hailiang Ma

    2016-11-01

    Full Text Available While urbanization brings economic and social benefits, it also causes water pollution and other environmental ecological problems. This paper provides a theoretical framework to quantitatively analyze the dynamic relationship between water resource utilization and the process of urbanization. Using data from Jiangsu province, we first construct indices to evaluate urbanization and water resource utilization. We then adopt an entropy model to examine the correlation between urbanization and water resource utilization. In addition, we introduce a dynamic coupling model to analyze and predict the coupling degree between urbanization and water resource utilization. Our analyses show that pairing with rising urbanization during 2002–2014, the overall index of water resource utilization in Jiangsu province has experienced a “decline -rise-decline” trend. Specifically, after the index of water resource utilization reached its lowest point in 2004, it gradually began to rise. Water resource utilization reached its highest value in 2010. The coupling degree between urbanization and water resource utilization was relatively low in 2002 and 2003 varying between −90° and 0°. It has been rising since then. Out-of-sample forecasts indicate that the coupling degree will reach its highest value of 74.799° in 2016, then will start to gradually decline. Jiangsu province was chosen as our studied area because it is one of the selected pilot provinces for China’s economic reform and social development. The analysis of the relationship between provincial water resource utilization and urbanization is essential to the understanding of the dynamic relationship between these two systems. It also serves as an important input for developing national policies for sustainable urbanization and water resource management.

  7. Comparison of dynamical aspects of nonadiabatic electron, proton, and proton-coupled electron transfer reactions

    International Nuclear Information System (INIS)

    Hatcher, Elizabeth; Soudackov, Alexander; Hammes-Schiffer, Sharon

    2005-01-01

    The dynamical aspects of a model proton-coupled electron transfer (PCET) reaction in solution are analyzed with molecular dynamics simulations. The rate for nonadiabatic PCET is expressed in terms of a time-dependent probability flux correlation function. The impact of the proton donor-acceptor and solvent dynamics on the probability flux is examined. The dynamical behavior of the probability flux correlation function is dominated by a solvent damping term that depends on the energy gap correlation function. The proton donor-acceptor motion does not impact the dynamical behavior of the probability flux correlation function but does influence the magnitude of the rate. The approximations previously invoked for the calculation of PCET rates are tested. The effects of solvent damping on the proton donor-acceptor vibrational motion are found to be negligible, and the short-time solvent approximation, in which only equilibrium fluctuations of the solvent are considered, is determined to be valid for these types of reactions. The analysis of PCET reactions is compared to previous analyses of single electron and proton transfer reactions. The dynamical behavior is qualitatively similar for all three types of reactions, but the time scale of the decay of the probability flux correlation function is significantly longer for single proton transfer than for PCET and single electron transfer due to a smaller solvent reorganization energy for proton transfer

  8. Tubulins as therapeutic targets in cancer: from bench to bedside

    Czech Academy of Sciences Publication Activity Database

    Katsetos, C.D.; Dráber, Pavel

    2012-01-01

    Roč. 18, č. 19 (2012), s. 2778-2792 ISSN 1381-6128 R&D Projects: GA ČR GA204/09/1777; GA AV ČR KAN200520701; GA MŠk 1M0506 Institutional research plan: CEZ:AV0Z50520514 Keywords : microtubules * tubulin * cancer Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 3.311, year: 2012

  9. Direct fluorescent-dye labeling of α-tubulin in mammalian cells for live cell and superresolution imaging.

    Science.gov (United States)

    Schvartz, Tomer; Aloush, Noa; Goliand, Inna; Segal, Inbar; Nachmias, Dikla; Arbely, Eyal; Elia, Natalie

    2017-10-15

    Genetic code expansion and bioorthogonal labeling provide for the first time a way for direct, site-specific labeling of proteins with fluorescent-dyes in live cells. Although the small size and superb photophysical parameters of fluorescent-dyes offer unique advantages for high-resolution microscopy, this approach has yet to be embraced as a tool in live cell imaging. Here we evaluated the feasibility of this approach by applying it for α-tubulin labeling. After a series of calibrations, we site-specifically labeled α-tubulin with silicon rhodamine (SiR) in live mammalian cells in an efficient and robust manner. SiR-labeled tubulin successfully incorporated into endogenous microtubules at high density, enabling video recording of microtubule dynamics in interphase and mitotic cells. Applying this labeling approach to structured illumination microscopy resulted in an increase in resolution, highlighting the advantages in using a smaller, brighter tag. Therefore, using our optimized assay, genetic code expansion provides an attractive tool for labeling proteins with a minimal, bright tag in quantitative high-resolution imaging. © 2017 Schvartz et al. This article is distributed by The American Society for Cell Biology under license from the author(s). Two months after publication it is available to the public under an Attribution–Noncommercial–Share Alike 3.0 Unported Creative Commons License (http://creativecommons.org/licenses/by-nc-sa/3.0).

  10. Complex dynamics analysis of impulsively coupled Duffing oscillators with ring structure

    Science.gov (United States)

    Jiang, Hai-Bo; Zhang, Li-Ping; Yu, Jian-Jiang

    2015-02-01

    Impulsively coupled systems are high-dimensional non-smooth systems that can exhibit rich and complex dynamics. This paper studies the complex dynamics of a non-smooth system which is unidirectionally impulsively coupled by three Duffing oscillators in a ring structure. By constructing a proper Poincaré map of the non-smooth system, an analytical expression of the Jacobian matrix of Poincaré map is given. Two-parameter Hopf bifurcation sets are obtained by combining the shooting method and the Runge-Kutta method. When the period is fixed and the coupling strength changes, the system undergoes stable, periodic, quasi-periodic, and hyper-chaotic solutions, etc. Floquet theory is used to study the stability of the periodic solutions of the system and their bifurcations. Project supported by the National Natural Science Foundation of China (Grant Nos. 11402224, 11202180, 61273106, and 11171290), the Qing Lan Project of the Jiangsu Higher Educational Institutions of China, and the Jiangsu Overseas Research and Training Program for University Prominent Young and Middle-aged Teachers and Presidents.

  11. Dynamical implications of prescribing part of a coupled system: Results from a low-order model

    Directory of Open Access Journals (Sweden)

    A. T. Wittenberg

    1998-01-01

    Full Text Available It is a common procedure in climate modelling to specify dynamical system components from an external source; a prominent example is the forcing of an atmospheric model with observed sea surface temperatures. In this paper, we examine the dynamics of such forced models using a simple prototype climate system. A particular fully coupled run of the model is designated the "true" solution, and an ensemble of perturbed initial states is generated by adding small errors to the "true" initial state. The perturbed ensemble is then integrated for the same period as the true solution, using both the fully-coupled model and a model in which the ocean is prescribed exactly from the true solution at every time step. Although the prescribed forcing is error-free, the forced-atmosphere ensemble is shown to converge to spurious solutions. Statistical tests show that neither the time-mean state nor the variability of the forced ensemble is consistent with the fully-coupled system. A stability analysis reveals the source of the inconsistency, and suggests that such behaviour may be a more general feature of models with prescribed subsystems. Possible implications for model validation and predictability are discussed.

  12. Synchronization of hybrid-coupled delayed dynamical networks with noises by partial mixed impulsive control strategy

    Science.gov (United States)

    Zhao, Yi; Fu, Fangfang; Wang, Jingyi; Feng, Jianwen; Zhang, Haiyu

    2018-02-01

    In this paper, a new control method named partial mixed impulsive control strategy is proposed to investigate the problem of exponential synchronization in mean square for a class of general hybrid-coupled delayed dynamical networks with both internal delay and coupling delay. The partial mixed impulsive effects in this strategy can be taken as local and time-varying, which means that they are not only injected into a fraction of nodes in the whole networks but also contain synchronizing and desynchronizing impulses at the same time. In addition, to be more realistic, a delayed coupling term involving the transmission delay and self-feedback delay is taken into account. By means of the Lyapunov method and the comparison principle for impulsive systems, several sufficient criteria are obtained to guarantee the global exponential synchronization in mean square of the dynamical network. The obtained criteria are closely related to the proportion of the controlled nodes, the strengths of mixed impulses, the impulsive intervals, the time delays and the topology structure of the networks. Finally, a numerical example is given to demonstrate the effectiveness of our results.

  13. Modeling Coupled Landscape Evolution and Soil Organic Carbon Dynamics in Intensively Management Landscapes

    Science.gov (United States)

    Yan, Q.; Kumar, P.

    2017-12-01

    Soil is the largest reservoir of carbon in the biosphere but in agricultural areas it is going through rapid erosion due disturbance arising from crop harvest, tillage, and tile drainage. Identifying whether the production of soil organic carbon (SOC) from the crops can compensate for the loss due to erosion is critical to ensure our food security and adapt to climate change. In the U.S. Midwest where large areas of land are intensively managed for agriculture practices, predicting soil quantity and quality are critical for maintaining crop yield and other Critical Zone services. This work focuses on modeling the coupled landscape evolutions soil organic carbon dynamics in agricultural fields. It couples landscape evolution, surface water runoff, organic matter transformation, and soil moisture dynamics to understand organic carbon gain and loss due to natural forcing and farming practices, such as fertilizer application and tillage. A distinctive feature of the model is the coupling of surface ad subsurface processes that predicts both surficial changes and transport along with the vertical transport and dynamics. Our results show that landscape evolution and farming practices play dominant roles in soil organic carbon (SOC) dynamics both above- and below-ground. Contrary to the common assumption that a vertical profile of SOC concentration decreases exponentially with depth, we find that in many situations SOC concentration below-ground could be higher than that at the surface. Tillage plays a complex role in organic matter dynamics. On one hand, tillage would accelerate the erosion rate, on the other hand, it would improve carbon storage by burying surface SOC into below ground. Our model consistently reproduces the observed above- and below-ground patterns of SOC in the field sites of Intensively Managed Landscapes Critical Zone Observatory (IMLCZO). This model bridges the gaps between the landscape evolution, below- and above-ground hydrologic cycle, and

  14. Reactor physics simulations with coupled Monte Carlo calculation and computational fluid dynamics

    International Nuclear Information System (INIS)

    Seker, V.; Thomas, J.W.; Downar, T.J.

    2007-01-01

    A computational code system based on coupling the Monte Carlo code MCNP5 and the Computational Fluid Dynamics (CFD) code STAR-CD was developed as an audit tool for lower order nuclear reactor calculations. This paper presents the methodology of the developed computer program 'McSTAR'. McSTAR is written in FORTRAN90 programming language and couples MCNP5 and the commercial CFD code STAR-CD. MCNP uses a continuous energy cross section library produced by the NJOY code system from the raw ENDF/B data. A major part of the work was to develop and implement methods to update the cross section library with the temperature distribution calculated by STARCD for every region. Three different methods were investigated and implemented in McSTAR. The user subroutines in STAR-CD are modified to read the power density data and assign them to the appropriate variables in the program and to write an output data file containing the temperature, density and indexing information to perform the mapping between MCNP and STAR-CD cells. Preliminary testing of the code was performed using a 3x3 PWR pin-cell problem. The preliminary results are compared with those obtained from a STAR-CD coupled calculation with the deterministic transport code DeCART. Good agreement in the k eff and the power profile was observed. Increased computational capabilities and improvements in computational methods have accelerated interest in high fidelity modeling of nuclear reactor cores during the last several years. High-fidelity has been achieved by utilizing full core neutron transport solutions for the neutronics calculation and computational fluid dynamics solutions for the thermal-hydraulics calculation. Previous researchers have reported the coupling of 3D deterministic neutron transport method to CFD and their application to practical reactor analysis problems. One of the principal motivations of the work here was to utilize Monte Carlo methods to validate the coupled deterministic neutron transport

  15. Static and dynamic behavior of interlayer exchange coupled Ni80Fe20/Ru continuous films and nanowires

    Science.gov (United States)

    Xiong, L. L.; Adeyeye, A. O.

    2018-01-01

    We present the static and dynamic results of engineered interlayer exchange coupled Ni80Fe20 (Py)/Ru continuous films and arrays of nanowires. We demonstrate a robust control of the coupling mechanism by varying the number of ferromagnetic layers and the thickness of Ru. We found that the antiferromagnetic coupling strength affects both the static and dynamic behaviors of the ferromagnetic layers (a strong antiferromagnetic coupling when the Ru thickness is 1 nm and negligible antiferromagnetic coupling when it is 1.4 nm). Most interestingly, multiple resonant modes were found for five-layer nanowires at remanence due to the interlayer exchange coupling. There is a good qualitative agreement between the experiment and the micromagnetic simulation. The results may suggest a novel way in the design of spintronic devices.

  16. NMR J-coupling constants in cisplatin derivatives studied by molecular dynamics and relativistic DFT.

    Science.gov (United States)

    Sutter, Kiplangat; Truflandier, Lionel A; Autschbach, Jochen

    2011-06-06

    Solvent effects on J((195)Pt-(15)N) one-bond nuclear spin-spin coupling constants (J(PtN)) of cisplatin [cis-diamminedichloroplatinum(II)] and three cisplatin derivatives are investigated using a combination of density functional theory (DFT) based ab initio molecular dynamics (aiMD) and all-electron relativistic DFT NMR calculations employing the two-component relativistic zeroth-order regular approximation (ZORA). Good agreement with experiment is obtained when explicit solvent molecules are considered and when the computations are performed with a hybrid functional. Spin-orbit coupling causes only small effects on J(PtN) . Key factors contributing to the magnitude of coupling constants are elucidated, with the most significant being the presence of solvent as well as the quality of the density functional and basis set combination. The solvent effects are of the same magnitude as J(PtN) calculated for gas-phase geometries. However, the trends of J(PtN) among the complexes are already present in the gas phase. Results obtained with a continuum solvent model agree quite well with the aiMD results, provided that the Pt solvent-accessible radius is carefully chosen. The aiMD results support the existence of a partial hydrogen-bond-like inverse-hydration-type interaction affording a weak (1)J(Pt⋅⋅⋅H(w)) coupling between the complexes and the coordinating water molecule. Copyright © 2011 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  17. A mapping variable ring polymer molecular dynamics study of condensed phase proton-coupled electron transfer

    Science.gov (United States)

    Pierre, Sadrach; Duke, Jessica R.; Hele, Timothy J. H.; Ananth, Nandini

    2017-12-01

    We investigate the mechanisms of condensed phase proton-coupled electron transfer (PCET) using Mapping-Variable Ring Polymer Molecular Dynamics (MV-RPMD), a recently developed method that employs an ensemble of classical trajectories to simulate nonadiabatic excited state dynamics. Here, we construct a series of system-bath model Hamiltonians for the PCET, where four localized electron-proton states are coupled to a thermal bath via a single solvent mode, and we employ MV-RPMD to simulate state population dynamics. Specifically, for each model, we identify the dominant PCET mechanism, and by comparing against rate theory calculations, we verify that our simulations correctly distinguish between concerted PCET, where the electron and proton transfer together, and sequential PCET, where either the electron or the proton transfers first. This work represents a first application of MV-RPMD to multi-level condensed phase systems; we introduce a modified MV-RPMD expression that is derived using a symmetric rather than asymmetric Trotter discretization scheme and an initialization protocol that uses a recently derived population estimator to constrain trajectories to a dividing surface. We also demonstrate that, as expected, the PCET mechanisms predicted by our simulations are robust to an arbitrary choice of the initial dividing surface.

  18. Dynamic modeling and experiments on the coupled vibrations of building and elevator ropes

    Science.gov (United States)

    Yang, Dong-Ho; Kim, Ki-Young; Kwak, Moon K.; Lee, Seungjun

    2017-03-01

    This study is concerned with the theoretical modelling and experimental verification of the coupled vibrations of building and elevator ropes. The elevator ropes consist of a main rope which supports the cage and the compensation rope which is connected to the compensation sheave. The elevator rope is a flexible wire with a low damping, so it is prone to vibrations. In the case of a high-rise building, the rope length also increases significantly, so that the fundamental frequency of the elevator rope approaches the fundamental frequency of the building thus increasing the possibility of resonance. In this study, the dynamic model for the analysis of coupled vibrations of building and elevator ropes was derived by using Hamilton's principle, where the cage motion was also considered. An experimental testbed was built to validate the proposed dynamic model. It was found that the experimental results are in good agreement with the theoretical predictions thus validating the proposed dynamic model. The proposed model was then used to predict the vibrations of real building and elevator ropes.

  19. Coupled slow and fast surface dynamics in an electrocatalytic oscillator: Model and simulations

    International Nuclear Information System (INIS)

    Nascimento, Melke A.; Nagao, Raphael; Eiswirth, Markus; Varela, Hamilton

    2014-01-01

    The co-existence of disparate time scales is pervasive in many systems. In particular for surface reactions, it has been shown that the long-term evolution of the core oscillator is decisively influenced by slow surface changes, such as progressing deactivation. Here we present an in-depth numerical investigation of the coupled slow and fast surface dynamics in an electrocatalytic oscillator. The model consists of four nonlinear coupled ordinary differential equations, investigated over a wide parameter range. Besides the conventional bifurcation analysis, the system was studied by means of high-resolution period and Lyapunov diagrams. It was observed that the bifurcation diagram changes considerably as the irreversible surface poisoning evolves, and the oscillatory region shrinks. The qualitative dynamics changes accordingly and the chaotic oscillations are dramatically suppressed. Nevertheless, periodic cascades are preserved in a confined region of the resistance vs. voltage diagram. Numerical results are compared to experiments published earlier and the latter reinterpreted. Finally, the comprehensive description of the time-evolution in the period and Lyapunov diagrams suggests further experimental studies correlating the evolution of the system's dynamics with changes of the catalyst structure

  20. Molecular dynamics coupled with a virtual system for effective conformational sampling.

    Science.gov (United States)

    Hayami, Tomonori; Kasahara, Kota; Nakamura, Haruki; Higo, Junichi

    2018-02-21

    An enhanced conformational sampling method is proposed: virtual-system coupled canonical molecular dynamics (VcMD). Although VcMD enhances sampling along a reaction coordinate, this method is free from estimation of a canonical distribution function along the reaction coordinate. This method introduces a virtual system that does not necessarily obey a physical law. To enhance sampling the virtual system couples with a molecular system to be studied. Resultant snapshots produce a canonical ensemble. This method was applied to a system consisting of two short peptides in an explicit solvent. Conventional molecular dynamics simulation, which is ten times longer than VcMD, was performed along with adaptive umbrella sampling. Free-energy landscapes computed from the three simulations mutually converged well. The VcMD provided quicker association/dissociation motions of peptides than the conventional molecular dynamics did. The VcMD method is applicable to various complicated systems because of its methodological simplicity. © 2018 Wiley Periodicals, Inc. © 2018 Wiley Periodicals, Inc.

  1. Coupled slow and fast surface dynamics in an electrocatalytic oscillator: Model and simulations

    Science.gov (United States)

    Nascimento, Melke A.; Nagao, Raphael; Eiswirth, Markus; Varela, Hamilton

    2014-12-01

    The co-existence of disparate time scales is pervasive in many systems. In particular for surface reactions, it has been shown that the long-term evolution of the core oscillator is decisively influenced by slow surface changes, such as progressing deactivation. Here we present an in-depth numerical investigation of the coupled slow and fast surface dynamics in an electrocatalytic oscillator. The model consists of four nonlinear coupled ordinary differential equations, investigated over a wide parameter range. Besides the conventional bifurcation analysis, the system was studied by means of high-resolution period and Lyapunov diagrams. It was observed that the bifurcation diagram changes considerably as the irreversible surface poisoning evolves, and the oscillatory region shrinks. The qualitative dynamics changes accordingly and the chaotic oscillations are dramatically suppressed. Nevertheless, periodic cascades are preserved in a confined region of the resistance vs. voltage diagram. Numerical results are compared to experiments published earlier and the latter reinterpreted. Finally, the comprehensive description of the time-evolution in the period and Lyapunov diagrams suggests further experimental studies correlating the evolution of the system's dynamics with changes of the catalyst structure.

  2. Dynamic phase transition from localized to spatiotemporal chaos in coupled circle map with feedback.

    Science.gov (United States)

    Sonawane, Abhijeet R; Gade, Prashant M

    2011-03-01

    We investigate coupled circle maps in the presence of feedback and explore various dynamical phases observed in this system of coupled high dimensional maps. We observe an interesting transition from localized chaos to spatiotemporal chaos. We study this transition as a dynamic phase transition. We observe that persistence acts as an excellent quantifier to describe this transition. Taking the location of the fixed point of circle map (which does not change with feedback) as a reference point, we compute a number of sites which have been greater than (less than) the fixed point until time t. Though local dynamics is high dimensional in this case, this definition of persistence which tracks a single variable is an excellent quantifier for this transition. In most cases, we also obtain a well defined persistence exponent at the critical point and observe conventional scaling as seen in second order phase transitions. This indicates that persistence could work as a good order parameter for transitions from fully or partially arrested phase. We also give an explanation of gaps in eigenvalue spectrum of the Jacobian of localized state.

  3. Vertex coloring of graphs via phase dynamics of coupled oscillatory networks.

    Science.gov (United States)

    Parihar, Abhinav; Shukla, Nikhil; Jerry, Matthew; Datta, Suman; Raychowdhury, Arijit

    2017-04-19

    While Boolean logic has been the backbone of digital information processing, there exist classes of computationally hard problems wherein this paradigm is fundamentally inefficient. Vertex coloring of graphs, belonging to the class of combinatorial optimization, represents one such problem. It is well studied for its applications in data sciences, life sciences, social sciences and technology, and hence, motivates alternate, more efficient non-Boolean pathways towards its solution. Here we demonstrate a coupled relaxation oscillator based dynamical system that exploits insulator-metal transition in Vanadium Dioxide (VO 2 ) to efficiently solve vertex coloring of graphs. Pairwise coupled VO 2 oscillator circuits have been analyzed before for basic computing operations, but using complex networks of VO 2 oscillators, or any other oscillators, for more complex tasks have been challenging in theory as well as in experiments. The proposed VO 2 oscillator network harnesses the natural analogue between optimization problems and energy minimization processes in highly parallel, interconnected dynamical systems to approximate optimal coloring of graphs. We further indicate a fundamental connection between spectral properties of linear dynamical systems and spectral algorithms for graph coloring. Our work not only elucidates a physics-based computing approach but also presents tantalizing opportunities for building customized analog co-processors for solving hard problems efficiently.

  4. A Non-Hermitian Approach to Non-Linear Switching Dynamics in Coupled Cavity-Waveguide Systems

    DEFF Research Database (Denmark)

    Heuck, Mikkel; Kristensen, Philip Trøst; Mørk, Jesper

    2012-01-01

    We present a non-Hermitian perturbation theory employing quasi-normal modes to investigate non-linear all-optical switching dynamics in a photonic crystal coupled cavity-waveguide system and compare with finite-difference-time-domain simulations.......We present a non-Hermitian perturbation theory employing quasi-normal modes to investigate non-linear all-optical switching dynamics in a photonic crystal coupled cavity-waveguide system and compare with finite-difference-time-domain simulations....

  5. Compressible Kolmogorov flow in strongly coupled dusty plasma using molecular dynamics and computational fluid dynamics. II. A comparative study

    Science.gov (United States)

    Gupta, Akanksha; Ganesh, Rajaraman; Joy, Ashwin

    2018-01-01

    In this paper, we perform comparative studies of compressible Kolmogorov flow in the two-dimensional strongly coupled dusty plasma by means of atomistic or molecular dynamics (MD) and continuum or computational fluid dynamics (CFD) methods. Recently, using MD simulation, generation of molecular shear heat at the atomistic level is shown to reduce the average coupling strength of the system and destruct the vortical structures. To suppress the molecular heat, a novel method of a thermostat, namely, the configurational thermostat is introduced by which the microscale heat generated by the shear flow has shown to be thermostatted out efficiently without compromising the large scale vortex dynamics. While using a configurational thermostat, it has been found that the growth rate obtained from both the studies is the same with the marginal difference. To make the comparison with the continuum fluid model, we perform the same study using the generalised hydrodynamic model, wherein molecular shear heating phenomena is completely absent, however, viscous dissipation is there at the macroscale level. For this purpose, an Advanced Generalised SPECTral Code has been developed to study the linear and nonlinear aspects of the Kolmogorov flow in the incompressible and compressible limit for viscoelastic fluids. All the phenomenological parameters used in CFD simulations have been calculated from MD simulations. Code is benchmarked against the eigen value solver in the linear regime. Linear growth-rates calculated from the phenomenological fluid model is found to be close to that obtained from MD simulation for the same set of input parameters. The transition from laminar to turbulent flow has been found at a critical value of Reynolds number Rc in both the macroscopic (CFD) and microscopic (MD) simulation. Rc in MD is smaller than the one obtained by CFD simulation. In the nonlinear regime of CFD, the mode becomes unstable and vortex formation happens earlier than in MD. The

  6. Parameter Estimation for Coupled Hydromechanical Simulation of Dynamic Compaction Based on Pareto Multiobjective Optimization

    Directory of Open Access Journals (Sweden)

    Wei Wang

    2015-01-01

    Full Text Available This paper presented a parameter estimation method based on a coupled hydromechanical model of dynamic compaction and the Pareto multiobjective optimization technique. The hydromechanical model of dynamic compaction is established in the FEM program LS-DYNA. The multiobjective optimization algorithm, Nondominated Sorted Genetic Algorithm (NSGA-IIa, is integrated with the numerical model to identify soil parameters using multiple sources of field data. A field case study is used to demonstrate the capability of the proposed method. The observed pore water pressure and crater depth at early blow of dynamic compaction are simultaneously used to estimate the soil parameters. Robustness of the back estimated parameters is further illustrated by a forward prediction. Results show that the back-analyzed soil parameters can reasonably predict lateral displacements and give generally acceptable predictions of dynamic compaction for an adjacent location. In addition, for prediction of ground response of the dynamic compaction at continuous blows, the prediction based on the second blow is more accurate than the first blow due to the occurrence of the hardening and strengthening of soil during continuous compaction.

  7. Coupled contagion dynamics of fear and disease: mathematical and computational explorations.

    Directory of Open Access Journals (Sweden)

    Joshua M Epstein

    Full Text Available BACKGROUND: In classical mathematical epidemiology, individuals do not adapt their contact behavior during epidemics. They do not endogenously engage, for example, in social distancing based on fear. Yet, adaptive behavior is well-documented in true epidemics. We explore the effect of including such behavior in models of epidemic dynamics. METHODOLOGY/PRINCIPAL FINDINGS: Using both nonlinear dynamical systems and agent-based computation, we model two interacting contagion processes: one of disease and one of fear of the disease. Individuals can "contract" fear through contact with individuals who are infected with the disease (the sick, infected with fear only (the scared, and infected with both fear and disease (the sick and scared. Scared individuals--whether sick or not--may remove themselves from circulation with some probability, which affects the contact dynamic, and thus the disease epidemic proper. If we allow individuals to recover from fear and return to circulation, the coupled dynamics become quite rich, and can include multiple waves of infection. We also study flight as a behavioral response. CONCLUSIONS/SIGNIFICANCE: In a spatially extended setting, even relatively small levels of fear-inspired flight can have a dramatic impact on spatio-temporal epidemic dynamics. Self-isolation and spatial flight are only two of many possible actions that fear-infected individuals may take. Our main point is that behavioral adaptation of some sort must be considered.

  8. Coupled dynamics of interacting spin-1 bosons in a double-well potential

    Science.gov (United States)

    Carvalho, D. W. S.; Foerster, A.; Gusmão, M. A.

    2018-03-01

    We present a detailed analysis of dynamical processes involving two or three particles in a double-well potential. Motivated by experimental realizations of such a system with optically trapped cold atoms, we focus on spin-1 bosons with special attention on the effects of a spin-dependent interaction in addition to the usual Hubbard-like repulsive one. For a sufficiently weak tunneling amplitude in comparison to the dominant Hubbard coupling, particle motion is strongly correlated, occurring only under fine-tuned relationships between well-depth asymmetry and interactions. We highlight processes involving tunneling of coupled particle pairs and triads, emphasizing the role of the spin-dependent interaction in resonance conditions.

  9. Dynamical correlation functions of the quadratic coupling spin-Boson model

    Science.gov (United States)

    Zheng, Da-Chuan; Tong, Ning-Hua

    2017-06-01

    The spin-boson model with quadratic coupling is studied using the bosonic numerical renormalization group method. We focus on the dynamical auto-correlation functions {C}O(ω ), with the operator \\hat{O} taken as {\\hat{{{σ }}}}x, {\\hat{{{σ }}}}z, and \\hat{X}, respectively. In the weak-coupling regime α index and X is the boson displacement operator. Close to the spin flip point, the high frequency peak of {C}{{{σ }}x}(ω ) is broadened significantly and the line shape changes qualitatively, showing enhanced dephasing at the spin flip point. Project supported by the National Key Basic Research Program of China (Grant No. 2012CB921704), the National Natural Science Foundation of China (Grant No. 11374362), the Fundamental Research Funds for the Central Universities, China, and the Research Funds of Renmin University of China (Grant No. 15XNLQ03).

  10. The coupling of mechanical dynamics and induced currents in plates and surfaces

    International Nuclear Information System (INIS)

    Weissenburger, D.W.; Bialek, J.M.

    1986-10-01

    Significant mechanical reactions and deflections may be produced when electrical eddy currents induced in a conducting structure by transformer-like electromotive forces interact with background magnetic fields. Additional eddy currents induced by structural motion through the background fields modify both the mechanical and electrical dynamic behavior of the system. The observed effects of these motional eddy currents are sometimes referred to as magnetic damping and magnetic stiffness. This paper addresses the coupled structural deformation and eddy currents in flat plates and simple two-dimensional surfaces in three-space. A coupled system of equations has been formulated using finite element techniques for the mechanical aspects and a mesh network method for the electrical aspects of the problem

  11. Tight Coupling of Metabolic Oscillations and Intracellular Water Dynamics in Saccharomyces cerevisiae

    DEFF Research Database (Denmark)

    Thoke, Henrik Seir; Tobiesen, Asger; Brewer, Jonathan R.

    2015-01-01

    conditions, ii) water dipolar relaxation oscillates with glycolysis and in phase with ATP concentration, iii) this phenomenon is scale-invariant from the subcellular to the ensemble of synchronized cells and, iv) the periodicity of both glycolytic oscillations and dipolar relaxation are equally affected by D......We detected very strong coupling between the oscillating concentration of ATP and the dynamics of intracellular water during glycolysis in Saccharomyces cerevisiae. Our results indicate that: i) dipolar relaxation of intracellular water is heterogeneous within the cell and different from dilute......2O in a dose-dependent manner. These results offer a new insight into the coupling of an emergent intensive physicochemical property of the cell, i.e. cell-wide water dipolar relaxation, and a central metabolite (ATP) produced by a robustly oscillating metabolic process....

  12. Synchronization of Stochastically Coupled Oscillators: Dynamical Phase Transitions and Large Deviations Theory (or Birds and Frogs)

    Science.gov (United States)

    Teodorescu, Razvan

    2009-10-01

    Systems of oscillators coupled non-linearly (stochastically or not) are ubiquitous in nature and can explain many complex phenomena: coupled Josephson junction arrays, cardiac pacemaker cells, swarms or flocks of insects and birds, etc. They are know to have a non-trivial phase diagram, which includes chaotic, partially synchronized, and fully synchronized phases. A traditional model for this class of problems is the Kuramoto system of oscillators, which has been studied extensively for the last three decades. The model is a canonical example for non-equilibrium, dynamical phase transitions, so little understood in physics. From a stochastic analysis point of view, the transition is described by the large deviations principle, which offers little information on the scaling behavior near the critical point. I will discuss a special case of the model, which allows a rigorous analysis of the critical properties of the model, and reveals a new, anomalous scaling behavior in the vicinity of the critical point.

  13. Vacuum Rabi Splitting and Dynamics of the Jaynes—Cummings Model for Arbitrary Coupling

    International Nuclear Information System (INIS)

    Zhang Yu-Yu; Chen Qing-Hu; Zhu Shi-Yao

    2013-01-01

    The effects of counter-rotating terms (CRTs) on Rabi splitting and the dynamic evolution of atomic population in the Jaynes—Cummings model are studied with a coherent-state approach. When the coupling strength increases, the Rabi splitting becomes of multi-Rabi frequencies for the initial state of an excited atom in a vacuum field, and the collapses and revivals gradually disappear, and then reappear with quite good periodicity. Without the rotating-wave approximation (RWA), the initial excited state contains many eigenstates rather than two eigenstates under the RWA, which results in the multi-peak emission spectrum. An analytical approximate solution for the strong coupling regime is obtained, which gives a new oscillation frequency and explains the recovery of collapses and revivals due to the equal energy spacing

  14. Dynamics of a quantum emitter resonantly coupled to both external field and localized surface plasmon

    Science.gov (United States)

    Nerkararyan, Khachatur V.; Yezekyan, Torgom S.; Bozhevolnyi, Sergey I.

    2018-01-01

    We investigate excitation dynamics in the system of a quantum dipole emitter (QDE) coupled to a located nearby metal nanoparticle (MNP), which exhibits a dipolar localized surface plasmon (LSP) resonance at the frequency of the QDE radiative transition, in the presence of a strong external resonant electromagnetic field. Considering the QDE-field interactions in the regime of strong QDE-field coupling, we show that the feedback provided by the MNP on the QDE (due to the LSP excitation with the field generated by the dipole moment of the QDE transition) influences significantly the coherent process of Rabi oscillations, resulting in the occurrence of additional satellite frequencies in the radiation spectrum scattered by the QDE-MNP configuration. The relative ratio of high harmonics depends strongly on the QDE-MNP separation, an important characteristic feature that can be used for observing this effect and can be exploited, for example, for controlling distances at the nanoscale.

  15. Optimizing basin-scale coupled water quantity and water quality management with stochastic dynamic programming

    DEFF Research Database (Denmark)

    Davidsen, Claus; Liu, Suxia; Mo, Xingguo

    2015-01-01

    Few studies address water quality in hydro-economic models, which often focus primarily on optimal allocation of water quantities. Water quality and water quantity are closely coupled, and optimal management with focus solely on either quantity or quality may cause large costs in terms of the oth......-er component. In this study, we couple water quality and water quantity in a joint hydro-economic catchment-scale optimization problem. Stochastic dynamic programming (SDP) is used to minimize the basin-wide total costs arising from water allocation, water curtailment and water treatment. The simple water...... concentrations. Inelastic water demands, fixed water allocation curtailment costs and fixed wastewater treatment costs (before and after use) are estimated for the water users (agriculture, industry and domestic). If the BOD concentration exceeds a given user pollution thresh-old, the user will need to pay...

  16. A Benchmarking setup for Coupled Earthquake Cycle - Dynamic Rupture - Tsunami Simulations

    Science.gov (United States)

    Behrens, Joern; Bader, Michael; van Dinther, Ylona; Gabriel, Alice-Agnes; Madden, Elizabeth H.; Ulrich, Thomas; Uphoff, Carsten; Vater, Stefan; Wollherr, Stephanie; van Zelst, Iris

    2017-04-01

    We developed a simulation framework for coupled physics-based earthquake rupture generation with tsunami propagation and inundation on a simplified subduction zone system for the project "Advanced Simulation of Coupled Earthquake and Tsunami Events" (ASCETE, funded by the Volkswagen Foundation). Here, we present a benchmarking setup that can be used for complex rupture models. The workflow begins with a 2D seismo-thermo-mechanical earthquake cycle model representing long term deformation along a planar, shallowly dipping subduction zone interface. Slip instabilities that approximate earthquakes arise spontaneously along the subduction zone interface in this model. The absolute stress field and material properties for a single slip event are used as initial conditions for a dynamic earthquake rupture model.The rupture simulation is performed with SeisSol, which uses an ADER discontinuous Galerkin discretization scheme with an unstructured tetrahedral mesh. The seafloor displacements resulting from this rupture are transferred to the tsunami model with a simple coastal run-up profile. An adaptive mesh discretizing the shallow water equations with a Runge-Kutta discontinuous Galerkin (RKDG) scheme subsequently allows for an accurate and efficient representation of the tsunami evolution and inundation at the coast. This workflow allows for evaluation of how the rupture behavior affects the hydrodynamic wave propagation and coastal inundation. We present coupled results for differing earthquake scenarios. Examples include megathrust only ruptures versus ruptures with splay fault branching off the megathrust near the surface. Coupling to the tsunami simulation component is performed either dynamically (time dependent) or statically, resulting in differing tsunami wave and inundation behavior. The simplified topographical setup allows for systematic parameter studies and reproducible physical studies.

  17. Development of a dynamic coupled hydro-geomechanical code and its application to induced seismicity

    Science.gov (United States)

    Miah, Md Mamun

    This research describes the importance of a hydro-geomechanical coupling in the geologic sub-surface environment from fluid injection at geothermal plants, large-scale geological CO2 sequestration for climate mitigation, enhanced oil recovery, and hydraulic fracturing during wells construction in the oil and gas industries. A sequential computational code is developed to capture the multiphysics interaction behavior by linking a flow simulation code TOUGH2 and a geomechanics modeling code PyLith. Numerical formulation of each code is discussed to demonstrate their modeling capabilities. The computational framework involves sequential coupling, and solution of two sub-problems- fluid flow through fractured and porous media and reservoir geomechanics. For each time step of flow calculation, pressure field is passed to the geomechanics code to compute effective stress field and fault slips. A simplified permeability model is implemented in the code that accounts for the permeability of porous and saturated rocks subject to confining stresses. The accuracy of the TOUGH-PyLith coupled simulator is tested by simulating Terzaghi's 1D consolidation problem. The modeling capability of coupled poroelasticity is validated by benchmarking it against Mandel's problem. The code is used to simulate both quasi-static and dynamic earthquake nucleation and slip distribution on a fault from the combined effect of far field tectonic loading and fluid injection by using an appropriate fault constitutive friction model. Results from the quasi-static induced earthquake simulations show a delayed response in earthquake nucleation. This is attributed to the increased total stress in the domain and not accounting for pressure on the fault. However, this issue is resolved in the final chapter in simulating a single event earthquake dynamic rupture. Simulation results show that fluid pressure has a positive effect on slip nucleation and subsequent crack propagation. This is confirmed by

  18. Failure mechanism and coupled static-dynamic loading theory in deep hard rock mining: A review

    Directory of Open Access Journals (Sweden)

    Xibing Li

    2017-08-01

    Full Text Available Rock failure phenomena, such as rockburst, slabbing (or spalling and zonal disintegration, related to deep underground excavation of hard rocks are frequently reported and pose a great threat to deep mining. Currently, the explanation for these failure phenomena using existing dynamic or static rock mechanics theory is not straightforward. In this study, new theory and testing method for deep underground rock mass under coupled static-dynamic loading are introduced. Two types of coupled loading modes, i.e. “critical static stress + slight disturbance” and “elastic static stress + impact disturbance”, are proposed, and associated test devices are developed. Rockburst phenomena of hard rocks under coupled static-dynamic loading are successfully reproduced in the laboratory, and the rockburst mechanism and related criteria are demonstrated. The results of true triaxial unloading compression tests on granite and red sandstone indicate that the unloading can induce slabbing when the confining pressure exceeds a certain threshold, and the slabbing failure strength is lower than the shear failure strength according to the conventional Mohr-Column criterion. Numerical results indicate that the rock unloading failure response under different in situ stresses and unloading rates can be characterized by an equivalent strain energy density. In addition, we present a new microseismic source location method without premeasuring the sound wave velocity in rock mass, which can efficiently and accurately locate the rock failure in hard rock mines. Also, a new idea for deep hard rock mining using a non-explosive continuous mining method is briefly introduced.

  19. Static and dynamic polarizabilities of Na- within a variationally stable coupled-channel hyperspherical method

    International Nuclear Information System (INIS)

    Masili, Mauro; Groote, J.J. de

    2004-01-01

    Using a model potential representation combined with a variationally stable method, we present a precise calculation of the electric dipole polarizabilities of the sodium negative ion (Na - ). The effective two-electron eigensolutions for Na - are obtained from a hyperspherical coupled-channel calculation. This approach allows efficient error control and insight into the system's properties through one-dimensional potential curves. Our result of 1018.3 a.u. for the static dipole polarizability is in agreement with previous calculations and supports our results for the dynamic polarizability, which has scarcely been investigated hitherto

  20. Control for dynamics of two coupled Bose-Einstein condensate solitons by potential deviation

    Energy Technology Data Exchange (ETDEWEB)

    Li Hong [Department of Physics, Hubei Normal University, Huangshi (China); School of Mechanical and Electronic Engineering, Huangshi Institute of Technology, Huangshi (China)], E-mail: lihong-hust@hust.edu.cn; Wang, D.N. [Department of Electrical Engineering, The Hong Kong Polytechnic University, Hong Kong (China)

    2008-06-15

    The control of the potential deviation for two coupled Bose-Einstein condensate solitons is investigated by the variational approach, and the effects of the potential deviation on dynamics of the two Bose-Einstein condensate solitons are discussed. The potential deviation resets the stationary state, affects the existence time, and changes the switching and self-trapping effect on the Bose-Einstein condensate solitons. The results are confirmed by the evolution of the atom population transferring ratio, and demonstrate a new way to guide the motion of the two Bose-Einstein condensate solitons.

  1. A coupled dynamical-copula downscaling approach for temperature projections over the Canadian Prairies

    Science.gov (United States)

    Zhou, Xiong; Huang, Guohe; Wang, Xiuquan; Fan, Yurui; Cheng, Guanhui

    2017-11-01

    In this study, a coupled dynamical-copula downscaling approach was developed through integrating the Providing Regional Climates for Impacts Studies (PRECIS) modeling system and the copula method. This approach helps to reflect detailed features at local scales based on dynamical downscaling, while also effectively simulating the interactions between large-scale atmospheric variables (predictors) and local surface variables (predictands). The performance of the proposed approach in reproducing historical climatology of the Canadian Prairies was evaluated through comparison with observations. Future climate projections generated by the developed approach were analyzed over three time slices (i.e., the 2030s, 2050s, and 2080s) to help understand the plausible changes in temperature over the Canadian Prairies in response to global warming. The results showed that there would be an apparent increasing pattern over the Canadian Prairies. The projections of future temperature over three time slices can provide decision makers with valuable information for climate change impacts assessment over the Canadian Prairies.

  2. Coupled quintessence and the impossibility of an interaction: a dynamical analysis study

    Energy Technology Data Exchange (ETDEWEB)

    Bernardi, Fabrizio F.; Landim, Ricardo G. [Universidade de Sao Paulo, Instituto de Fisica, Caixa Postal 66318, Sao Paulo, SP (Brazil)

    2017-05-15

    We analyze the coupled quintessence in the light of the linear dynamical systems theory, with two different interactions: (1) proportional to the energy density of the dark energy and (2) proportional to the sum of the energy densities of the dark matter and dark energy. The results presented here enlarge the previous analyses in the literature, wherein the interaction has been only proportional to the energy density of the dark matter. In the first case it is possible to get the well-known sequence of cosmological eras. For the second interaction only the radiation and the dark-energy era can be described by the fixed points. Therefore, from the point of view of dynamical system theory, the interaction proportional to the sum of the energy densities of the dark matter and dark energy does not describe the universe we live in. (orig.)

  3. Tubulin and actin interplay at the T cell and Antigen-presenting cell interface

    Directory of Open Access Journals (Sweden)

    Noa B Martín-Cófreces

    2011-07-01

    Full Text Available T cells reorganize their actin and tubulin-based cytoskeletons to provide a physical basis to the immune synapse. However, growing evidence shows that their roles on T cell activation are more dynamic than merely serving as tracks or scaffold for different molecules. The cross-talk between both skeletons may be important for the formation and movement of the lamella at the IS by increasing the adhesion of the T cell to the APC, thus favoring the transport of components towards the plasma membrane and in turn regulating the T-APC intercellular communication. Microtubules and F-actin appear to be essential for the transport of the different signaling microclusters along the membrane, therefore facilitating the propagation of the signal. Finally, they can also be important for regulating the endocytosis, recycling and degradation of the TCR signaling machinery, thus helping both to sustain the activated state and to switch it off.

  4. Kibble-Zurek dynamics in an array of coupled binary Bose condensates

    Science.gov (United States)

    Xu, Jun; Wu, Shuyuan; Qin, Xizhou; Huang, Jiahao; Ke, Yongguan; Zhong, Honghua; Lee, Chaohong

    2016-03-01

    Universal dynamics of spontaneous symmetry breaking is central to understanding the universal behavior of spontaneous defect formation in various systems from the early universe, condensed-matter systems to ultracold atomic systems. We explore the universal real-time dynamics in an array of coupled binary atomic Bose-Einstein condensates in optical lattices, which undergo a spontaneous symmetry breaking from the symmetric Rabi oscillation to the broken-symmetry self-trapping. In addition to Goldstone modes, there exist gapped Higgs modes whose excitation gap vanishes at the critical point. In the slow passage through the critical point, we analytically find that the symmetry-breaking dynamics obeys the Kibble-Zurek mechanism. From the scalings of bifurcation delay and domain formation, we numerically extract two Kibble-Zurek exponents, b1=ν/(1+ν z) and b2=1/(1+ν z) , which give the static correlation-length critical exponent ν and the dynamic critical exponent z. Our approach provides an efficient way for the simultaneous determination of the critical exponents ν and z for a continuous phase transition.

  5. Simulating coupled dynamics of a rigid-flexible multibody system and compressible fluid

    Science.gov (United States)

    Hu, Wei; Tian, Qiang; Hu, HaiYan

    2018-04-01

    As a subsequent work of previous studies of authors, a new parallel computation approach is proposed to simulate the coupled dynamics of a rigid-flexible multibody system and compressible fluid. In this approach, the smoothed particle hydrodynamics (SPH) method is used to model the compressible fluid, the natural coordinate formulation (NCF) and absolute nodal coordinate formulation (ANCF) are used to model the rigid and flexible bodies, respectively. In order to model the compressible fluid properly and efficiently via SPH method, three measures are taken as follows. The first is to use the Riemann solver to cope with the fluid compressibility, the second is to define virtual particles of SPH to model the dynamic interaction between the fluid and the multibody system, and the third is to impose the boundary conditions of periodical inflow and outflow to reduce the number of SPH particles involved in the computation process. Afterwards, a parallel computation strategy is proposed based on the graphics processing unit (GPU) to detect the neighboring SPH particles and to solve the dynamic equations of SPH particles in order to improve the computation efficiency. Meanwhile, the generalized-alpha algorithm is used to solve the dynamic equations of the multibody system. Finally, four case studies are given to validate the proposed parallel computation approach.

  6. Coupling Protein Dynamics with Proton Transport in Human Carbonic Anhydrase II.

    Science.gov (United States)

    Taraphder, Srabani; Maupin, C Mark; Swanson, Jessica M J; Voth, Gregory A

    2016-08-25

    The role of protein dynamics in enzyme catalysis is one of the most highly debated topics in enzymology. The main controversy centers around what may be defined as functionally significant conformational fluctuations and how, if at all, these fluctuations couple to enzyme catalyzed events. To shed light on this debate, the conformational dynamics along the transition path surmounting the highest free energy barrier have been herein investigated for the rate limiting proton transport event in human carbonic anhydrase (HCA) II. Special attention has been placed on whether the motion of an excess proton is correlated with fluctuations in the surrounding protein and solvent matrix, which may be rare on the picosecond and subpicosecond time scales of molecular motions. It is found that several active site residues, which do not directly participate in the proton transport event, have a significant impact on the dynamics of the excess proton. These secondary participants are shown to strongly influence the active site environment, resulting in the creation of water clusters that are conducive to fast, moderately slow, or slow proton transport events. The identification and characterization of these secondary participants illuminates the role of protein dynamics in the catalytic efficiency of HCA II.

  7. Ivermectin binds to Haemonchus contortus tubulins and promotes stability of microtubules.

    Science.gov (United States)

    Ashraf, Shoaib; Beech, Robin N; Hancock, Mark A; Prichard, Roger K

    2015-08-01

    Haemonchus contortus is a nematode of livestock that can cause severe disease and mortality. Ivermectin, an anti-parasitic drug that targets glutamate-gated chloride channels, is widely used in humans, livestock, companion animals and agriculture. Although an association between genetic changes to β-tubulin and exposure to ivermectin has been previously reported, direct binding between ivermectin and tubulin has not been demonstrated to date. Tubulin/microtubules are key targets for many anti-mitotic drugs used in anti-parasite and cancer therapies. We now report that ivermectin exposure increased the rate and extent of polymerisation of H. contortus recombinant α- and β-tubulin, and protected the parasitic α- and β-tubulins from limited trypsin proteolysis. Direct binding between ivermectin and the tubulin monomers exhibited low micromolar affinities, as determined using surface plasmon resonance. Subsequent equilibrium dialysis indicated that ivermectin and Taxol compete for binding to tubulin, supporting our molecular modelling that predicts ivermectin interacts with the Taxol binding pocket of both parasitic and mammalian tubulins. Collectively, our data indicate that ivermectin can bind to and stabilise microtubules (i.e., alter the tubulin polymerisation equilibrium) and this can then lead to mitotic arrest. This work extends the range of known pharmacological effects of ivermectin, and reveals its potential as an anti-mitotic agent. Copyright © 2015 Australian Society for Parasitology Inc. Published by Elsevier Ltd. All rights reserved.

  8. Dynamic diffraction-limited light-coupling of 3D-maneuvered wave-guided optical waveguides.

    Science.gov (United States)

    Villangca, Mark; Bañas, Andrew; Palima, Darwin; Glückstad, Jesper

    2014-07-28

    We have previously proposed and demonstrated the targeted-light delivery capability of wave-guided optical waveguides (WOWs). As the WOWs are maneuvered in 3D space, it is important to maintain efficient light coupling through the waveguides within their operating volume. We propose the use of dynamic diffractive techniques to create diffraction-limited spots that will track and couple to the WOWs during operation. This is done by using a spatial light modulator to encode the necessary diffractive phase patterns to generate the multiple and dynamic coupling spots. The method is initially tested for a single WOW and we have experimentally demonstrated dynamic tracking and coupling for both lateral and axial displacements.

  9. Dynamic diffraction-limited light-coupling of 3D-maneuvered wave-guided optical waveguides

    DEFF Research Database (Denmark)

    Villangca, Mark Jayson; Bañas, Andrew Rafael; Palima, Darwin

    2014-01-01

    We have previously proposed and demonstrated the targeted-light delivery capability of wave-guided optical waveguides (WOWs). As the WOWs are maneuvered in 3D space, it is important to maintain efficient light coupling through the waveguides within their operating volume. We propose the use...... of dynamic diffractive techniques to create diffraction-limited spots that will track and couple to the WOWs during operation. This is done by using a spatial light modulator to encode the necessary diffractive phase patterns to generate the multiple and dynamic coupling spots. The method is initially tested...... for a single WOW and we have experimentally demonstrated dynamic tracking and coupling for both lateral and axial displacements....

  10. Modulation of individual auditory-motor coordination dynamics through interpersonal visual coupling.

    Science.gov (United States)

    Miyata, Kohei; Varlet, Manuel; Miura, Akito; Kudo, Kazutoshi; Keller, Peter E

    2017-11-24

    The current study investigated whether visual coupling between two people producing dance-related movements (requiring whole-body auditory-motor coordination) results in interpersonal entrainment and modulates individual auditory-motor coordination dynamics. Paired participants performed two kinds of coordination tasks - either knee flexion or extension repeatedly with metronome beats (Flexion-on-the-beat and Extension-on-the-beat conditions) while standing face-to-face or back-to-back to manipulate visual interaction. The results indicated that the relative phases between paired participants' movements were closer to 0° and less variable when participants could see each other. In addition, visibility of the partner reduced individual differences in the dynamics of auditory-motor coordination by modulating coordination variability and the frequency of phase transitions from Extension-on-the-beat to Flexion-on-the-beat. Together, these results indicate that visual coupling takes place when paired participants can see each other and leads to interpersonal entrainment during rhythmic auditory-motor coordination, which compensates for individual differences via behavioural assimilation and thus enables individuals to achieve unified and cohesive performances.

  11. Study on coupled dynamics of ship and flooding water based on experimental and SPH methods

    Science.gov (United States)

    Cheng, H.; Zhang, A. M.; Ming, F. R.

    2017-10-01

    The present paper studies the fluid dynamics during the flooding of a damaged ship numerically and experimentally. Attention is focused on the fluid flow characteristics and the fluid-structure interactions. The Smoothed Particle Hydrodynamics (SPH) method with an improved boundary treatment is established, which is able to capture the flow behaviors effectively. Fairly good agreement is obtained between the computational and experimental results. Based on the SPH method, the simulations are carried out for the flooding of a damaged ship with different opening sizes, opening positions, and numbers of the flooding cabins. Besides, the effects of the wave are also taken into account. The fluid behaviors are described and analyzed in detail. It is found that, during the first phase of flooding, an inflow jet with a large velocity is formed, significantly influencing the inner flows and the ship responses. During the progressive flooding phase, sloshing, crushing of the free surface, wave breaking, and vortex shedding are observed which are coupled with the ship motions. In addition, some relevant conclusions are enclosed for the motion laws of the damaged ship. This work provides physical insight into the flooding of the damaged ship, which is helpful to understand the coupled dynamics of the ship and flooding water.

  12. Nonreciprocity in the dynamics of coupled oscillators with nonlinearity, asymmetry, and scale hierarchy

    Science.gov (United States)

    Moore, Keegan J.; Bunyan, Jonathan; Tawfick, Sameh; Gendelman, Oleg V.; Li, Shuangbao; Leamy, Michael; Vakakis, Alexander F.

    2018-01-01

    In linear time-invariant dynamical and acoustical systems, reciprocity holds by the Onsager-Casimir principle of microscopic reversibility, and this can be broken only by odd external biases, nonlinearities, or time-dependent properties. A concept is proposed in this work for breaking dynamic reciprocity based on irreversible nonlinear energy transfers from large to small scales in a system with nonlinear hierarchical internal structure, asymmetry, and intentional strong stiffness nonlinearity. The resulting nonreciprocal large-to-small scale energy transfers mimic analogous nonlinear energy transfer cascades that occur in nature (e.g., in turbulent flows), and are caused by the strong frequency-energy dependence of the essentially nonlinear small-scale components of the system considered. The theoretical part of this work is mainly based on action-angle transformations, followed by direct numerical simulations of the resulting system of nonlinear coupled oscillators. The experimental part considers a system with two scales—a linear large-scale oscillator coupled to a small scale by a nonlinear spring—and validates the theoretical findings demonstrating nonreciprocal large-to-small scale energy transfer. The proposed study promotes a paradigm for designing nonreciprocal acoustic materials harnessing strong nonlinearity, which in a future application will be implemented in designing lattices incorporating nonlinear hierarchical internal structures, asymmetry, and scale mixing.

  13. A method of recovering the initial vectors of globally coupled map lattices based on symbolic dynamics

    International Nuclear Information System (INIS)

    Sun Li-Sha; Kang Xiao-Yun; Zhang Qiong; Lin Lan-Xin

    2011-01-01

    Based on symbolic dynamics, a novel computationally efficient algorithm is proposed to estimate the unknown initial vectors of globally coupled map lattices (CMLs). It is proved that not all inverse chaotic mapping functions are satisfied for contraction mapping. It is found that the values in phase space do not always converge on their initial values with respect to sufficient backward iteration of the symbolic vectors in terms of global convergence or divergence (CD). Both CD property and the coupling strength are directly related to the mapping function of the existing CML. Furthermore, the CD properties of Logistic, Bernoulli, and Tent chaotic mapping functions are investigated and compared. Various simulation results and the performances of the initial vector estimation with different signal-to-noise ratios (SNRs) are also provided to confirm the proposed algorithm. Finally, based on the spatiotemporal chaotic characteristics of the CML, the conditions of estimating the initial vectors using symbolic dynamics are discussed. The presented method provides both theoretical and experimental results for better understanding and characterizing the behaviours of spatiotemporal chaotic systems. (general)

  14. High-performance modeling of CO2 sequestration by coupling reservoir simulation and molecular dynamics

    KAUST Repository

    Bao, Kai

    2013-01-01

    The present work describes a parallel computational framework for CO2 sequestration simulation by coupling reservoir simulation and molecular dynamics (MD) on massively parallel HPC systems. In this framework, a parallel reservoir simulator, Reservoir Simulation Toolbox (RST), solves the flow and transport equations that describe the subsurface flow behavior, while the molecular dynamics simulations are performed to provide the required physical parameters. Numerous technologies from different fields are employed to make this novel coupled system work efficiently. One of the major applications of the framework is the modeling of large scale CO2 sequestration for long-term storage in the subsurface geological formations, such as depleted reservoirs and deep saline aquifers, which has been proposed as one of the most attractive and practical solutions to reduce the CO2 emission problem to address the global-warming threat. To effectively solve such problems, fine grids and accurate prediction of the properties of fluid mixtures are essential for accuracy. In this work, the CO2 sequestration is presented as our first example to couple the reservoir simulation and molecular dynamics, while the framework can be extended naturally to the full multiphase multicomponent compositional flow simulation to handle more complicated physical process in the future. Accuracy and scalability analysis are performed on an IBM BlueGene/P and on an IBM BlueGene/Q, the latest IBM supercomputer. Results show good accuracy of our MD simulations compared with published data, and good scalability are observed with the massively parallel HPC systems. The performance and capacity of the proposed framework are well demonstrated with several experiments with hundreds of millions to a billion cells. To our best knowledge, the work represents the first attempt to couple the reservoir simulation and molecular simulation for large scale modeling. Due to the complexity of the subsurface systems

  15. Tropical Pacific internal atmospheric dynamics and resolution in a coupled GCM

    Science.gov (United States)

    Lopez, Hosmay; Kirtman, Ben P.

    2015-01-01

    A noise reduction technique, namely the interactive ensemble (IE) approach is adopted to reduce noise at the air-sea interface due to internal atmospheric dynamics in a state-of-the-art coupled general circulation model (CGCM). The IE technique uses multiple realization of atmospheric general circulation models coupled to a single ocean general circulation model. The ensembles mean fluxes from the atmospheric simulations are communicated to the ocean component. Each atmospheric simulation receives the same SST coming from the ocean component. The only difference among the atmospheric simulations comes from perturbed initial conditions, thus the atmospheric states are, in principle synoptically independent. The IE technique can be used to better understand the importance of weather noise forcing of natural variability such as El Niño Southern Oscillation (ENSO). To study the impact of weather noise and resolution in the context of a CGCM, two IE experiments are performed at different resolutions. Atmospheric resolution is an important issue since the noise statistics will depend on the spatial scales resolved. A simple formulation to extract atmospheric internal variability is presented. The results are compared to their respective control cases where internal atmospheric variability is left unchanged. The noise reduction has a major impact on the coupled simulation and the magnitude of this effect strongly depends on the horizontal resolution of the atmospheric component model. Specifically, applying the noise reduction technique reduces the overall climate variability more effectively at higher resolution. This suggests that "weather noise" is more important in sustaining climate variability as resolution increases. ENSO statistics, dynamics, and phase asymmetry are all modified by the noise reduction, in particular ENSO becomes more regular with less phase asymmetry when noise is reduced. All these effects are more marked for the higher resolution case. In

  16. Learning robotic eye-arm-hand coordination from human demonstration: a coupled dynamical systems approach.

    Science.gov (United States)

    Lukic, Luka; Santos-Victor, José; Billard, Aude

    2014-04-01

    We investigate the role of obstacle avoidance in visually guided reaching and grasping movements. We report on a human study in which subjects performed prehensile motion with obstacle avoidance where the position of the obstacle was systematically varied across trials. These experiments suggest that reaching with obstacle avoidance is organized in a sequential manner, where the obstacle acts as an intermediary target. Furthermore, we demonstrate that the notion of workspace travelled by the hand is embedded explicitly in a forward planning scheme, which is actively involved in detecting obstacles on the way when performing reaching. We find that the gaze proactively coordinates the pattern of eye-arm motion during obstacle avoidance. This study provides also a quantitative assessment of the coupling between the eye-arm-hand motion. We show that the coupling follows regular phase dependencies and is unaltered during obstacle avoidance. These observations provide a basis for the design of a computational model. Our controller extends the coupled dynamical systems framework and provides fast and synchronous control of the eyes, the arm and the hand within a single and compact framework, mimicking similar control system found in humans. We validate our model for visuomotor control of a humanoid robot.

  17. Coupling a point-like mass to quantum gravity with causal dynamical triangulations

    Energy Technology Data Exchange (ETDEWEB)

    Khavkine, I; Loll, R; Reska, P, E-mail: i.khavkine@uu.n, E-mail: r.loll@uu.n, E-mail: p.m.reska@uu.n [Spinoza Institute and Institute for Theoretical Physics, Utrecht University, Leuvenlaan 4, NL-3584 CE Utrecht (Netherlands)

    2010-09-21

    We present a possibility of coupling a point-like, non-singular, mass distribution to four-dimensional quantum gravity in the nonperturbative setting of causal dynamical triangulations (CDT). In order to provide a point of comparison for the classical limit of the matter-coupled CDT model, we derive the spatial volume profile of the Euclidean Schwarzschild-de Sitter space glued to an interior matter solution. The volume profile is calculated with respect to a specific proper-time foliation matching the global time slicing present in CDT. It deviates in a characteristic manner from that of the pure-gravity model. The appearance of coordinate caustics and the compactness of the mass distribution in lattice units put an upper bound on the total mass for which these calculations are expected to be valid. We also discuss some of the implementation details for numerically measuring the expectation value of the volume profiles in the framework of CDT when coupled appropriately to the matter source.

  18. Coupling a system code with computational fluid dynamics for the simulation of complex coolant reactivity effects

    International Nuclear Information System (INIS)

    Bertolotto, D.

    2011-11-01

    The current doctoral research is focused on the development and validation of a coupled computational tool, to combine the advantages of computational fluid dynamics (CFD) in analyzing complex flow fields and of state-of-the-art system codes employed for nuclear power plant (NPP) simulations. Such a tool can considerably enhance the analysis of NPP transient behavior, e.g. in the case of pressurized water reactor (PWR) accident scenarios such as Main Steam Line Break (MSLB) and boron dilution, in which strong coolant flow asymmetries and multi-dimensional mixing effects strongly influence the reactivity of the reactor core, as described in Chap. 1. To start with, a literature review on code coupling is presented in Chap. 2, together with the corresponding ongoing projects in the international community. Special reference is made to the framework in which this research has been carried out, i.e. the Paul Scherrer Institute's (PSI) project STARS (Steady-state and Transient Analysis Research for the Swiss reactors). In particular, the codes chosen for the coupling, i.e. the CFD code ANSYS CFX V11.0 and the system code US-NRC TRACE V5.0, are part of the STARS codes system. Their main features are also described in Chap. 2. The development of the coupled tool, named CFX/TRACE from the names of the two constitutive codes, has proven to be a complex and broad-based task, and therefore constraints had to be put on the target requirements, while keeping in mind a certain modularity to allow future extensions to be made with minimal efforts. After careful consideration, the coupling was defined to be on-line, parallel and with non-overlapping domains connected by an interface, which was developed through the Parallel Virtual Machines (PVM) software, as described in Chap. 3. Moreover, two numerical coupling schemes were implemented and tested: a sequential explicit scheme and a sequential semi-implicit scheme. Finally, it was decided that the coupling would be single

  19. Slug increases sensitivity to tubulin-binding agents via the downregulation of βIII and βIVa-tubulin in lung cancer cells.

    Science.gov (United States)

    Tamura, Daisuke; Arao, Tokuzo; Nagai, Tomoyuki; Kaneda, Hiroyasu; Aomatsu, Keiichi; Fujita, Yoshihiko; Matsumoto, Kazuko; De Velasco, Marco A; Kato, Hiroaki; Hayashi, Hidetoshi; Yoshida, Shuhei; Kimura, Hideharu; Maniwa, Yoshimasa; Nishio, Wataru; Sakai, Yasuhiro; Ohbayashi, Chiho; Kotani, Yoshikazu; Nishimura, Yoshihiro; Nishio, Kazuto

    2013-04-01

    Transcription factor Slug/SNAI2 (snail homolog 2) plays a key role in the induction of the epithelial mesenchymal transition in cancer cells; however, whether the overexpression of Slug mediates the malignant phenotype and alters drug sensitivity in lung cancer cells remains largely unclear. We investigated Slug focusing on its biological function and involvement in drug sensitivity in lung cancer cells. Stable Slug transfectants showed typical morphological changes compared with control cells. Slug overexpression did not change the cellular proliferations; however, migration activity and anchorage-independent growth activity with an antiapoptotic effect were increased. Interestingly, stable Slug overexpression increased drug sensitivity to tubulin-binding agents including vinorelbine, vincristine, and paclitaxel (5.8- to 8.9-fold increase) in several lung cancer cell lines but did not increase sensitivity to agents other than tubulin-binding agents. Real-time RT-PCR (polymerase chain reaction) and western blotting revealed that Slug overexpression downregulated the expression of βIII and βIVa-tubulin, which is considered to be a major factor determining sensitivity to tubulin-binding agents. A luciferase reporter assay confirmed that Slug suppressed the promoter activity of βIVa-tubulin at a transcriptional level. Slug overexpression enhanced tumor growth, whereas Slug overexpression increased drug sensitivity to vinorelbine with the downregulation of βIII and βIV-tubulin in vivo. Immunohistochemistry of Slug with clinical lung cancer samples showed that Slug overexpression tended to be involved in response to tubulin-binding agents. In conclusion, our data indicate that Slug mediates an aggressive phenotype including enhanced migration activity, anoikis suppression, and tumor growth, but increases sensitivity to tubulin-binding agents via the downregulation of βIII and βIVa-tubulin in lung cancer cells.

  20. Strong-coupling Bose polarons out of equilibrium: Dynamical renormalization-group approach

    Science.gov (United States)

    Grusdt, Fabian; Seetharam, Kushal; Shchadilova, Yulia; Demler, Eugene

    2018-03-01

    When a mobile impurity interacts with a surrounding bath of bosons, it forms a polaron. Numerous methods have been developed to calculate how the energy and the effective mass of the polaron are renormalized by the medium for equilibrium situations. Here, we address the much less studied nonequilibrium regime and investigate how polarons form dynamically in time. To this end, we develop a time-dependent renormalization-group approach which allows calculations of all dynamical properties of the system and takes into account the effects of quantum fluctuations in the polaron cloud. We apply this method to calculate trajectories of polarons following a sudden quench of the impurity-boson interaction strength, revealing how the polaronic cloud around the impurity forms in time. Such trajectories provide additional information about the polaron's properties which are challenging to extract directly from the spectral function measured experimentally using ultracold atoms. At strong couplings, our calculations predict the appearance of trajectories where the impurity wavers back at intermediate times as a result of quantum fluctuations. Our method is applicable to a broader class of nonequilibrium problems. As a check, we also apply it to calculate the spectral function and find good agreement with experimental results. At very strong couplings, we predict that quantum fluctuations lead to the appearance of a dark continuum with strongly suppressed spectral weight at low energies. While our calculations start from an effective Fröhlich Hamiltonian describing impurities in a three-dimensional Bose-Einstein condensate, we also calculate the effects of additional terms in the Hamiltonian beyond the Fröhlich paradigm. We demonstrate that the main effect of these additional terms on the attractive side of a Feshbach resonance is to renormalize the coupling strength of the effective Fröhlich model.

  1. The thermochemical, two-phase dynamics of subduction zones: results from new, fully coupled models

    Science.gov (United States)

    Rees Jones, D. W.; Katz, R. F.; May, D.; Tian, M.; Rudge, J. F.

    2017-12-01

    Subduction zones are responsible for most of Earth's subaerial volcanism. However, previous geodynamic modelling of subduction zones has largely neglected magmatism. We previously showed that magmatism has a significant thermal impact, by advecting sensible heat into the lithosphere beneath arc volcanos [1]. Inclusion of this effect helps reconcile subduction zone models with petrological and heat flow observations. Many important questions remain, including how magma-mantle dynamics of subduction zones affects the position of arc volcanos and the character of their lavas. In this presentation, we employ a fully coupled, thermochemical, two-phase flow theory to investigate the dynamics of subduction zones. We present the first results from our new software (SubFUSc), which solves the coupled equations governing conservation of mass, momentum, energy and chemical species. The presence and migration of partial melts affect permeability and mantle viscosity (both directly and through their thermal impact); these, in turn, feed back on the magma-mantle flow. Thus our fully coupled modelling improves upon previous two-phase models that decoupled the governing equations and fixed the thermal structure [2]. To capture phase change, we use a novel, simplified model of the mantle melting in the presence of volatile species. As in the natural system, volatiles are associated with low-degree melting at temperatures beneath the anhydrous solidus; dehydration reactions in the slab supply volatiles into the wedge, triggering silicic melting. We simulate the migration of melts under buoyancy forces and dynamic pressure gradients. We thereby demonstrate the dynamical controls on the pattern of subduction-zone volcanism (particularly its location, magnitude, and chemical composition). We build on our previous study of the thermal consequences of magma genesis and segregation. We address the question of what controls the location of arc volcanoes themselves [3]. [1] Rees Jones, D. W

  2. Novel tubulin and tau neuroprotective fragments sharing structural similarities with the drug candidate NAP (Davuentide).

    Science.gov (United States)

    Gozes, Illana; Iram, Tal; Maryanovsky, Evgenia; Arviv, Carmit; Rozenberg, Liora; Schirer, Yulie; Giladi, Eliezer; Furman-Assaf, Sharon

    2014-01-01

    NAP (NAPVSIPQ, davunetide) is a microtubule stabilizing peptide drug candidate. Here, we set out to identify NAP-like peptides that provide neuroprotection and reduce tau pathology. NAP-like peptides were derived using publically available search engines, which identified sequence homologies in the microtubule subunit tubulin and in the microtubule associated protein, tau. NATLSIHQ (NAT) and STPTAIPQ were derived from tubulin, and TAPVPMPD (TAP) was derived from tau. All peptides provided neuroprotection against the Alzheimer's disease (AD) toxin, the amyloid-β 1-42 peptide, although NAT and TAP were much more potent than STPTAIPQ. NAT also protected astrocytes, while STPTAIPQ was active only at micromolar concentrations. Because NAT and TAP were much more potent than STPTAIPQ in neuroprotection, those peptides were also tested for inhibition of tau-like aggregation (the second protein hallmark pathology of AD). Both NAT and TAP inhibited tau-like aggregation, with NAT being active over a very broad concentration range. NAT also protected in vivo in a frontotemporal dementia transgenic mouse model (Tau-Tg), when tested at the age of ~10 months. Results showed significantly decreased levels of the NAP parent protein, activity-dependent neuroprotective protein in the cerebral cortex of the Tau-Tg which was increased back to normal levels by NAT treatment. This was coupled to protection of Brain-Body weight ratio in the compromised Tau-Tg. With AD being the major tauopathy and with tau taking part in frontotemporal dementia, novel NAP derivatives that reduce tauopathy and provide neuroprotection are of basic and clinical interest.

  3. Regulation of microtubule nucleation mediated by gamma-tubulin complexes

    Czech Academy of Sciences Publication Activity Database

    Sulimenko, Vadym; Hájková, Zuzana; Klebanovych, Anastasiya; Dráber, Pavel

    2017-01-01

    Roč. 254, č. 3 (2017), s. 1187-1199 ISSN 0033-183X R&D Projects: GA MŠk(CZ) LD13015 Institutional support: RVO:68378050 Keywords : mitotic spindle formation * ring complex * fission yeast * organizing centers * protein complex * golgi-complex * cell -cycle * pole body * augmin * centrosome * Centrosomes * Microtubule nucleation * Microtubule-organizing centers * Non-centrosomal nucleation sites * Spindle pole bodies * gamma-Tubulin complexes Subject RIV: EB - Genetics ; Molecular Biology OBOR OECD: Cell biology Impact factor: 2.870, year: 2016

  4. Nuclear Tubulin: A Novel Target for Breast Cancer Chemotherapy

    Science.gov (United States)

    2001-05-01

    localized to the nucleus and kept inactive by being bound to importin-a, an " adapter " protein that is in turn bound to importin-[3. When mitosis begins, Ran...A. Castillo1, R.F. Luduena 3, and I. Meza 2 ’Departamentos de Biologia Celular and 2 Biomedicina Molecular, CINVESTA V del /PN, M6xico, D. F...resistance. J Biol Chem 270: 31269-31275. Hyams JS, Lloyd CW. 1994.-.The role of multiple tubulin isoforms in celular microtubule function. In: Raff E editor

  5. Numerical methods and parallel algorithms for fast transient strongly coupled fluid-structure dynamics

    International Nuclear Information System (INIS)

    Faucher, V.

    2014-01-01

    This HDR is dedicated to the research in the framework of fast transient dynamics for industrial fluid-structure systems carried in the Laboratory of Dynamic Studies from CEA, implementing new numerical methods for the modelling of complex systems and the parallel solution of large coupled problems on supercomputers. One key issue for the proposed approaches is the limitation to its minimum of the number of non-physical parameters, to cope with constraints arising from the area of usage of the concepts: safety for both nuclear applications (CEA, EDF) and aeronautics (ONERA), protection of the citizen (EC/JRC) in particular. Kinematic constraints strongly coupling structures (namely through unilateral contact) or fluid and structures (with both conformant or non-conformant meshes depending on the geometrical situation) are handled through exact methods including Lagrange Multipliers, with consequences on the solution strategy to be dealt with. This latter aspect makes EPX, the simulation code where the methods are integrated, a singular tool in the community of fast transient dynamics software. The document mainly relies on a description of the modelling needs for industrial fast transient scenarios, for nuclear applications in particular, and the proposed solutions built in the framework of the collaboration between CEA, EDF (via the LaMSID laboratory) and the LaMCoS laboratory from INSA Lyon. The main considered examples are the tearing of the fluid-filled tank after impact, the Code Disruptive Accident for a Generation IV reactor or the ruin of reinforced concrete structures under impact. Innovative models and parallel algorithms are thus proposed, allowing to carry out with robustness and performance the corresponding simulations on supercomputers made of interconnected multi-core nodes, with a strict preservation of the quality of the physical solution. This was particularly the main point of the ANR RePDyn project (2010-2013), with CEA as the pilot. (author

  6. Mouse hair cycle expression dynamics modeled as coupled mesenchymal and epithelial oscillators.

    Directory of Open Access Journals (Sweden)

    Ryan Tasseff

    2014-11-01

    Full Text Available The hair cycle is a dynamic process where follicles repeatedly move through phases of growth, retraction, and relative quiescence. This process is an example of temporal and spatial biological complexity. Understanding of the hair cycle and its regulation would shed light on many other complex systems relevant to biological and medical research. Currently, a systematic characterization of gene expression and summarization within the context of a mathematical model is not yet available. Given the cyclic nature of the hair cycle, we felt it was important to consider a subset of genes with periodic expression. To this end, we combined several mathematical approaches with high-throughput, whole mouse skin, mRNA expression data to characterize aspects of the dynamics and the possible cell populations corresponding to potentially periodic patterns. In particular two gene clusters, demonstrating properties of out-of-phase synchronized expression, were identified. A mean field, phase coupled oscillator model was shown to quantitatively recapitulate the synchronization observed in the data. Furthermore, we found only one configuration of positive-negative coupling to be dynamically stable, which provided insight on general features of the regulation. Subsequent bifurcation analysis was able to identify and describe alternate states based on perturbation of system parameters. A 2-population mixture model and cell type enrichment was used to associate the two gene clusters to features of background mesenchymal populations and rapidly expanding follicular epithelial cells. Distinct timing and localization of expression was also shown by RNA and protein imaging for representative genes. Taken together, the evidence suggests that synchronization between expanding epithelial and background mesenchymal cells may be maintained, in part, by inhibitory regulation, and potential mediators of this regulation were identified. Furthermore, the model suggests that

  7. A socio-hydrologic model of coupled water-agriculture dynamics with emphasis on farm size.

    Science.gov (United States)

    Brugger, D. R.; Maneta, M. P.

    2015-12-01

    Agricultural land cover dynamics in the U.S. are dominated by two trends: 1) total agricultural land is decreasing and 2) average farm size is increasing. These trends have important implications for the future of water resources because 1) growing more food on less land is due in large part to increased groundwater withdrawal and 2) larger farms can better afford both more efficient irrigation and more groundwater access. However, these large-scale trends are due to individual farm operators responding to many factors including climate, economics, and policy. It is therefore difficult to incorporate the trends into watershed-scale hydrologic models. Traditional scenario-based approaches are valuable for many applications, but there is typically no feedback between the hydrologic model and the agricultural dynamics and so limited insight is gained into the how agriculture co-evolves with water resources. We present a socio-hydrologic model that couples simplified hydrologic and agricultural economic dynamics, accounting for many factors that depend on farm size such as irrigation efficiency and returns to scale. We introduce an "economic memory" (EM) state variable that is driven by agricultural revenue and affects whether farms are sold when land market values exceed expected returns from agriculture. The model uses a Generalized Mixture Model of Gaussians to approximate the distribution of farm sizes in a study area, effectively lumping farms into "small," "medium," and "large" groups that have independent parameterizations. We apply the model in a semi-arid watershed in the upper Columbia River Basin, calibrating to data on streamflow, total agricultural land cover, and farm size distribution. The model is used to investigate the sensitivity of the coupled system to various hydrologic and economic scenarios such as increasing market value of land, reduced surface water availability, and increased irrigation efficiency in small farms.

  8. Roll System and Stock's Multi-parameter Coupling Dynamic Modeling Based on the Shape Control of Steel Strip

    Science.gov (United States)

    Zhang, Yang; Peng, Yan; Sun, Jianliang; Zang, Yong

    2017-05-01

    The existence of rolling deformation area in the rolling mill system is the main characteristic which distinguishes the other machinery. In order to analyze the dynamic property of roll system's flexural deformation, it is necessary to consider the transverse periodic movement of stock in the rolling deformation area which is caused by the flexural deformation movement of roll system simultaneously. Therefore, the displacement field of roll system and flow of metal in the deformation area is described by kinematic analysis in the dynamic system. Through introducing the lateral displacement function of metal in the deformation area, the dynamic variation of per unit width rolling force can be determined at the same time. Then the coupling law caused by the co-effect of rigid movement and flexural deformation of the system structural elements is determined. Furthermore, a multi-parameter coupling dynamic model of the roll system and stock is established by the principle of virtual work. More explicitly, the coupled motion modal analysis was made for the roll system. Meanwhile, the analytical solutions for the flexural deformation movement's mode shape functions of rolls are discussed. In addition, the dynamic characteristic of the lateral flow of metal in the rolling deformation area has been analyzed at the same time. The establishment of dynamic lateral displacement function of metal in the deformation area makes the foundation for analyzing the coupling law between roll system and rolling deformation area, and provides a theoretical basis for the realization of the dynamic shape control of steel strip.

  9. Modelling and simulation of biased agonism dynamics at a G protein-coupled receptor.

    Science.gov (United States)

    Bridge, L J; Mead, J; Frattini, E; Winfield, I; Ladds, G

    2018-04-07

    Theoretical models of G protein-coupled receptor (GPCR) concentration-response relationships often assume an agonist producing a single functional response via a single active state of the receptor. These models have largely been analysed assuming steady-state conditions. There is now much experimental evidence to suggest that many GPCRs can exist in multiple receptor conformations and elicit numerous functional responses, with ligands having the potential to activate different signalling pathways to varying extents-a concept referred to as biased agonism, functional selectivity or pluri-dimensional efficacy. Moreover, recent experimental results indicate a clear possibility for time-dependent bias, whereby an agonist's bias with respect to different pathways may vary dynamically. Efforts towards understanding the implications of temporal bias by characterising and quantifying ligand effects on multiple pathways will clearly be aided by extending current equilibrium binding and biased activation models to include G protein activation dynamics. Here, we present a new model of time-dependent biased agonism, based on ordinary differential equations for multiple cubic ternary complex activation models with G protein cycle dynamics. This model allows simulation and analysis of multi-pathway activation bias dynamics at a single receptor for the first time, at the level of active G protein (α GTP ), towards the analysis of dynamic functional responses. The model is generally applicable to systems with N G G proteins and N* active receptor states. Numerical simulations for N G =N * =2 reveal new insights into the effects of system parameters (including cooperativities, and ligand and receptor concentrations) on bias dynamics, highlighting new phenomena including the dynamic inter-conversion of bias direction. Further, we fit this model to 'wet' experimental data for two competing G proteins (G i and G s ) that become activated upon stimulation of the adenosine A 1

  10. Coupled dynamics of node and link states in complex networks: a model for language competition

    International Nuclear Information System (INIS)

    Carro, Adrián; Toral, Raúl; Miguel, Maxi San

    2016-01-01

    Inspired by language competition processes, we present a model of coupled evolution of node and link states. In particular, we focus on the interplay between the use of a language and the preference or attitude of the speakers towards it, which we model, respectively, as a property of the interactions between speakers (a link state) and as a property of the speakers themselves (a node state). Furthermore, we restrict our attention to the case of two socially equivalent languages and to socially inspired network topologies based on a mechanism of triadic closure. As opposed to most of the previous literature, where language extinction is an inevitable outcome of the dynamics, we find a broad range of possible asymptotic configurations, which we classify as: frozen extinction states, frozen coexistence states, and dynamically trapped coexistence states. Moreover, metastable coexistence states with very long survival times and displaying a non-trivial dynamics are found to be abundant. Interestingly, a system size scaling analysis shows, on the one hand, that the probability of language extinction vanishes exponentially for increasing system sizes and, on the other hand, that the time scale of survival of the non-trivial dynamical metastable states increases linearly with the size of the system. Thus, non-trivial dynamical coexistence is the only possible outcome for large enough systems. Finally, we show how this coexistence is characterized by one of the languages becoming clearly predominant while the other one becomes increasingly confined to ‘ghetto-like’ structures: small groups of bilingual speakers arranged in triangles, with a strong preference for the minority language, and using it for their intra-group interactions while they switch to the predominant language for communications with the rest of the population. (paper)

  11. Evidence of weak land-atmosphere coupling under varying bare soil conditions: Are fully coupled Darcy/Navier-Stokes models necessary for simulating soil moisture dynamics?

    Science.gov (United States)

    Illangasekare, T. H.; Trautz, A. C.; Howington, S. E.; Cihan, A.

    2017-12-01

    It is a well-established fact that the land and atmosphere form a continuum in which the individual domains are coupled by heat and mass transfer processes such as bare-soil evaporation. Soil moisture dynamics can be simulated at the representative elementary volume (REV) scale using decoupled and fully coupled Darcy/Navier-Stokes models. Decoupled modeling is an asynchronous approach in which flow and transport in the soil and atmosphere is simulated independently; the two domains are coupled out of time-step via prescribed flux parameterizations. Fully coupled modeling in contrast, solves the governing equations for flow and transport in both domains simultaneously with the use of coupling interface boundary conditions. This latter approach, while being able to provide real-time two-dimensional feedbacks, is considerably more complex and computationally intensive. In this study, we investigate whether fully coupled models are necessary, or if the simpler decoupled models can sufficiently capture soil moisture dynamics under varying land preparations. A series of intermediate-scale physical and numerical experiments were conducted in which soil moisture distributions and evaporation estimates were monitored at high spatiotemporal resolutions for different heterogeneous packing and soil roughness scenarios. All experimentation was conducted at the newly developed Center for Experimental Study of Subsurface Environmental Processes (CESEP) wind tunnel-porous media user test-facility at the Colorado School of. Near-surface atmospheric measurements made during the experiments demonstrate that the land-atmosphere coupling was relatively weak and insensitive to the applied edaphic and surface conditions. Simulations with a decoupled multiphase heat and mass transfer model similarly show little sensitivity to local variations in atmospheric forcing; a single, simple flux parameterization can sufficiently capture the soil moisture dynamics (evaporation and redistribution

  12. Coupled neutronics and thermal hydraulics modelling in reactor dynamics codes TRAB-3D and HEXTRAN

    International Nuclear Information System (INIS)

    Kyrki-Rajamaeki, R.; Raety, H.

    1999-01-01

    The reactor dynamics codes for transient and accident analyses inherently include the coupling of neutronics and thermal hydraulics modelling. In Finland a number of codes with 1D and 3D neutronic models have been developed, which include models also for the cooling circuits. They have been used mainly for the needs of Finnish power plants, but some of the codes have also been utilized elsewhere. The continuous validation, simultaneous development, and experiences obtained in commercial applications have considerably improved the performance and range of application of the codes. The fast operation of the codes has enabled realistic analysis of 3D core combined to a full model of the cooling circuit even in such long reactivity scenarios as ATWS. The reactor dynamics methods are developed further and new more detailed models are created for tasks related to increased safety requirements. For thermal hydraulics calculations, an accurate general flow model based on a new solution method has been developed. Although mainly intended for analysis purposes, the reactor dynamics codes also provide reference solutions for simulator applications. As computer capability increases, these more sophisticated methods can be taken into use also in simulator environments. (author)

  13. Modeling the coupled return-spread high frequency dynamics of large tick assets

    Science.gov (United States)

    Curato, Gianbiagio; Lillo, Fabrizio

    2015-01-01

    Large tick assets, i.e. assets where one tick movement is a significant fraction of the price and bid-ask spread is almost always equal to one tick, display a dynamics in which price changes and spread are strongly coupled. We present an approach based on the hidden Markov model, also known in econometrics as the Markov switching model, for the dynamics of price changes, where the latent Markov process is described by the transitions between spreads. We then use a finite Markov mixture of logit regressions on past squared price changes to describe temporal dependencies in the dynamics of price changes. The model can thus be seen as a double chain Markov model. We show that the model describes the shape of the price change distribution at different time scales, volatility clustering, and the anomalous decrease of kurtosis. We calibrate our models based on Nasdaq stocks and we show that this model reproduces remarkably well the statistical properties of real data.

  14. Dynamics of Entanglement in Jaynes–Cummings Nodes with Nonidentical Qubit-Field Coupling Strengths

    Directory of Open Access Journals (Sweden)

    Li-Tuo Shen

    2017-07-01

    Full Text Available How to analytically deal with the general entanglement dynamics of separate Jaynes–Cummings nodes with continuous-variable fields is still an open question, and few analytical approaches can be used to solve their general entanglement dynamics. Entanglement dynamics between two separate Jaynes–Cummings nodes are examined in this article. Both vacuum state and coherent state in the initial fields are considered through the numerical and analytical methods. The gap between two nonidentical qubit-field coupling strengths shifts the revival period and changes the revival amplitude of two-qubit entanglement. For vacuum-state fields, the maximal entanglement is fully revived after a gap-dependence period, within which the entanglement nonsmoothly decreases to zero and partly recovers without exhibiting sudden death phenomenon. For strong coherent-state fields, the two-qubit entanglement decays exponentially as the evolution time increases, exhibiting sudden death phenomenon, and the increasing gap accelerates the revival period and amplitude decay of the entanglement, where the numerical and analytical results have an excellent coincidence.

  15. Mode coupling theory for nonequilibrium glassy dynamics of thermal self-propelled particles.

    Science.gov (United States)

    Feng, Mengkai; Hou, Zhonghuai

    2017-06-28

    We present a mode coupling theory study for the relaxation and glassy dynamics of a system of strongly interacting self-propelled particles, wherein the self-propulsion force is described by Ornstein-Uhlenbeck colored noise and thermal noises are included. Our starting point is an effective Smoluchowski equation governing the distribution function of particle positions, from which we derive a memory function equation for the time dependence of density fluctuations in nonequilibrium steady states. With the basic assumption of the absence of macroscopic currents and standard mode coupling approximation, we can obtain expressions for the irreducible memory function and other relevant dynamic terms, wherein the nonequilibrium character of the active system is manifested through an averaged diffusion coefficient D[combining macron] and a nontrivial structural function S 2 (q) with q being the magnitude of wave vector q. D[combining macron] and S 2 (q) enter the frequency term and the vertex term for the memory function, and thus influence both the short time and the long time dynamics of the system. With these equations obtained, we study the glassy dynamics of this thermal self-propelled particle system by investigating the Debye-Waller factor f q and relaxation time τ α as functions of the persistence time τ p of self-propulsion, the single particle effective temperature T eff as well as the number density ρ. Consequently, we find the critical density ρ c for given τ p shifts to larger values with increasing magnitude of propulsion force or effective temperature, in good accordance with previously reported simulation work. In addition, the theory facilitates us to study the critical effective temperature T for fixed ρ as well as its dependence on τ p . We find that T increases with τ p and in the limit τ p → 0, it approaches the value for a simple passive Brownian system as expected. Our theory also well recovers the results for passive systems and can be

  16. Partial Overhaul and Initial Parallel Optimization of KINETICS, a Coupled Dynamics and Chemistry Atmosphere Model

    Science.gov (United States)

    Nguyen, Howard; Willacy, Karen; Allen, Mark

    2012-01-01

    KINETICS is a coupled dynamics and chemistry atmosphere model that is data intensive and computationally demanding. The potential performance gain from using a supercomputer motivates the adaptation from a serial version to a parallelized one. Although the initial parallelization had been done, bottlenecks caused by an abundance of communication calls between processors led to an unfavorable drop in performance. Before starting on the parallel optimization process, a partial overhaul was required because a large emphasis was placed on streamlining the code for user convenience and revising the program to accommodate the new supercomputers at Caltech and JPL. After the first round of optimizations, the partial runtime was reduced by a factor of 23; however, performance gains are dependent on the size of the data, the number of processors requested, and the computer used.

  17. A dynamically coupled allosteric network underlies binding cooperativity in Src kinase

    Science.gov (United States)

    Foda, Zachariah H.; Shan, Yibing; Kim, Eric T.; Shaw, David E.; Seeliger, Markus A.

    2015-01-01

    Protein tyrosine kinases are attractive drug targets because many human diseases are associated with the deregulation of kinase activity. However, how the catalytic kinase domain integrates different signals and switches from an active to an inactive conformation remains incompletely understood. Here we identify an allosteric network of dynamically coupled amino acids in Src kinase that connects regulatory sites to the ATP- and substrate-binding sites. Surprisingly, reactants (ATP and peptide substrates) bind with negative cooperativity to Src kinase while products (ADP and phosphopeptide) bind with positive cooperativity. We confirm the molecular details of the signal relay through the allosteric network by biochemical studies. Experiments on two additional protein tyrosine kinases indicate that the allosteric network may be largely conserved among these enzymes. Our work provides new insights into the regulation of protein tyrosine kinases and establishes a potential conduit by which resistance mutations to ATP-competitive kinase inhibitors can affect their activity.

  18. A dynamically coupled allosteric network underlies binding cooperativity in Src kinase.

    Science.gov (United States)

    Foda, Zachariah H; Shan, Yibing; Kim, Eric T; Shaw, David E; Seeliger, Markus A

    2015-01-20

    Protein tyrosine kinases are attractive drug targets because many human diseases are associated with the deregulation of kinase activity. However, how the catalytic kinase domain integrates different signals and switches from an active to an inactive conformation remains incompletely understood. Here we identify an allosteric network of dynamically coupled amino acids in Src kinase that connects regulatory sites to the ATP- and substrate-binding sites. Surprisingly, reactants (ATP and peptide substrates) bind with negative cooperativity to Src kinase while products (ADP and phosphopeptide) bind with positive cooperativity. We confirm the molecular details of the signal relay through the allosteric network by biochemical studies. Experiments on two additional protein tyrosine kinases indicate that the allosteric network may be largely conserved among these enzymes. Our work provides new insights into the regulation of protein tyrosine kinases and establishes a potential conduit by which resistance mutations to ATP-competitive kinase inhibitors can affect their activity.

  19. Spin dynamics and magnetoelectric coupling mechanism of C o4N b2O9

    Science.gov (United States)

    Deng, Guochu; Cao, Yiming; Ren, Wei; Cao, Shixun; Studer, Andrew J.; Gauthier, Nicolas; Kenzelmann, Michel; Davidson, Gene; Rule, Kirrily C.; Gardner, Jason S.; Imperia, Paolo; Ulrich, Clemens; McIntyre, Garry J.

    2018-02-01

    Neutron powder diffraction experiments reveal that C o4N b2O9 forms a noncollinear in-plane magnetic structure with C o2 + moments lying in the a b plane. The spin-wave excitations of this magnet were measured by using inelastic neutron scattering and soundly simulated by a dynamic model involving nearest- and next-nearest-neighbor exchange interactions, in-plane anisotropy, and the Dzyaloshinskii-Moriya interaction. The in-plane magnetic structure of C o4N b2O9 is attributed to the large in-plane anisotropy, while the noncollinearity of the spin configuration is attributed to the Dzyaloshinskii-Moriya interaction. The high magnetoelectric coupling effect of C o4N b2O9 in fields can be explained by its special in-plane magnetic structure.

  20. Investigating human neurovascular coupling using functional neuroimaging: a critical review of dynamic models

    Directory of Open Access Journals (Sweden)

    Clément eHuneau

    2015-12-01

    Full Text Available The mechanisms that link a transient neural activity to the corresponding increase of cerebral blood flow (CBF are termed neurovascular coupling (NVC. They are possibly impaired at early stage of small vessel or neurodegenerative diseases. Investigation of NVC in human has been made possible since the development of various neuroimaging techniques based on variations of local hemodynamics during neural activity. Specific dynamic models are currently used for interpreting these data that can include biophysical parameters related to NVC. We reviewed the seven models with explicit integration of NVC found in the literature and described their physiological assumption, mathematical formalism and validation. All models were described regarding a constant schematic formalism. Differences between them, particularly regarding their complexity, and hence, their potential use were finally evaluated. These models may provide key information to investigate various aspects of NVC in human pathology.

  1. Coupled Dzyaloshinskii walls and their current-induced dynamics by the spin Hall effect

    Energy Technology Data Exchange (ETDEWEB)

    Martínez, Eduardo, E-mail: edumartinez@usal.es [Dpto. de Fisica Aplicada, Universidad de Salamanca, Plaza de los Caídos s/n, E-37008 Salamanca (Spain); Alejos, Óscar [Dpto. de Electricidad y Electrónica, Universidad de Valladolid, Paseo de Belén, 7, E-47011 Valladolid (Spain)

    2014-07-14

    The nucleation of domain walls in ultrathin ferromagnetic/heavy-metal bilayers is studied by means of micromagnetic simulations. In the presence of interfacial Dzyaloshinskii-Moriya interaction, the nucleated walls naturally adopt a homochiral configuration with internal magnetization pointing antiparallely. The interaction between these walls was analyzed and described in terms of a classical dipolar force between the magnetic moments of the walls, which couples their dynamics. Additionally, the current-induced motion of two homochiral walls in the presence of longitudinal fields was also studied by means of a simple one-dimensional model and micromagnetic modeling, considering both one free-defect strip and another one with random edge roughness. It is evidenced that in the presence of pinning due to edge roughness, the in-plane longitudinal field introduces an asymmetry in the current-induced depinning, in agreement with recent experimental results.

  2. Novel drug design for Chagas disease via targeting Trypanosoma cruzi tubulin: Homology modeling and binding pocket prediction on Trypanosoma cruzi tubulin polymerization inhibition by naphthoquinone derivatives.

    Science.gov (United States)

    Ogindo, Charles O; Khraiwesh, Mozna H; George, Matthew; Brandy, Yakini; Brandy, Nailah; Gugssa, Ayele; Ashraf, Mohammad; Abbas, Muneer; Southerland, William M; Lee, Clarence M; Bakare, Oladapo; Fang, Yayin

    2016-08-15

    Chagas disease, also called American trypanosomiasis, is a parasitic disease caused by Trypanosoma cruzi (T. cruzi). Recent findings have underscored the abundance of the causative organism, (T. cruzi), especially in the southern tier states of the US and the risk burden for the rural farming communities there. Due to a lack of safe and effective drugs, there is an urgent need for novel therapeutic options for treating Chagas disease. We report here our first scientific effort to pursue a novel drug design for treating Chagas disease via the targeting of T. cruzi tubulin. First, the anti T. cruzi tubulin activities of five naphthoquinone derivatives were determined and correlated to their anti-trypanosomal activities. The correlation between the ligand activities against the T. cruzi organism and their tubulin inhibitory activities was very strong with a Pearson's r value of 0.88 (P value cruzi tubulin polymerization inhibition. Subsequent molecular modeling studies were carried out to understand the mechanisms of the anti-tubulin activities, wherein, the homology model of T. cruzi tubulin dimer was generated and the putative binding site of naphthoquinone derivatives was predicted. The correlation coefficient for ligand anti-tubulin activities and their binding energies at the putative pocket was found to be r=0.79, a high correlation efficiency that was not replicated in contiguous candidate pockets. The homology model of T. cruzi tubulin and the identification of its putative binding site lay a solid ground for further structure based drug design, including molecular docking and pharmacophore analysis. This study presents a new opportunity for designing potent and selective drugs for Chagas disease. Copyright © 2016 The Authors. Published by Elsevier Ltd.. All rights reserved.

  3. Relativistic coupling of internal and centre of mass dynamics in classical and simple bound quantum mechanical systems

    Science.gov (United States)

    E Krause, Dennis; Lee, Inbum

    2017-07-01

    Although special relativity and quantum mechanics revolutionised physics in the early 20th century, the consequences of combining these two theories are still being explored a hundred years later, usually using the formidable theoretical machinery of quantum field theory. However, a formalism accessible to undergraduates has been recently developed which shows how the centre of mass and internal dynamics of classical and quantum systems is relativistically coupled with interesting consequences. Here we explore some of the implications of this coupling, first classically, where we find that the dynamics of the system is time dilated when moving relative to another inertial frame. We then apply the dynamics to a quantum 2-level atom bound in a one-dimensional infinite potential well, and show that the coupling produces collapses and revivals in quantum interference. This example provides an illustration of how the combination of special relativity and quantum mechanics can be studied in situations familiar to most undergraduates.

  4. Quasiclassical methods for spin-charge coupled dynamics in low-dimensional systems

    International Nuclear Information System (INIS)

    Corini, Cosimo

    2009-01-01

    Spintronics is a new field of study whose broad aim is the manipulation of the spin degrees of freedom in solid state systems. One of its main goals is the realization of devices capable of exploiting, besides the charge, the carriers' - and possibly the nuclei's - spin. The presence of spin-orbit coupling in a system enables the spin and charge degrees of freedom to ''communicate'', a favorable situation if one is to realize such devices. More importantly, it offers the opportunity of doing so by relying solely on electric fields, whereas magnetic fields are otherwise required. Eminent examples of versatile systems with built-in and variously tunable spin-orbit interaction are two-dimensional electron - or hole - gases. The study of spin-charge coupled dynamics in such a context faces a large number of open questions, both of the fundamental and of the more practical type. To tackle the problem we rely on the quasiclassical formalism. This is an approximate quantum-field theoretical formulation with a solid microscopic foundation, perfectly suited for describing phenomena at the mesoscopic scale, and bearing a resemblance to standard Boltzmann theory which makes for physical transparency. Originally born to deal with transport in electron-phonon systems, we first generalize it to the case in which spin-orbit coupling is present, and then move on to apply it to specific situations and phenomena. Among these, to the description of the spin Hall effect and of voltage induced spin polarizations in two-dimensional electron gases under a variety of conditions - stationary or time-dependent, in the presence of magnetic and non-magnetic disorder, in the bulk or in confined geometries -, and to the problem of spin relaxation in narrow wires. (orig.)

  5. Quasiclassical methods for spin-charge coupled dynamics in low-dimensional systems

    Energy Technology Data Exchange (ETDEWEB)

    Corini, Cosimo

    2009-06-12

    Spintronics is a new field of study whose broad aim is the manipulation of the spin degrees of freedom in solid state systems. One of its main goals is the realization of devices capable of exploiting, besides the charge, the carriers' - and possibly the nuclei's - spin. The presence of spin-orbit coupling in a system enables the spin and charge degrees of freedom to ''communicate'', a favorable situation if one is to realize such devices. More importantly, it offers the opportunity of doing so by relying solely on electric fields, whereas magnetic fields are otherwise required. Eminent examples of versatile systems with built-in and variously tunable spin-orbit interaction are two-dimensional electron - or hole - gases. The study of spin-charge coupled dynamics in such a context faces a large number of open questions, both of the fundamental and of the more practical type. To tackle the problem we rely on the quasiclassical formalism. This is an approximate quantum-field theoretical formulation with a solid microscopic foundation, perfectly suited for describing phenomena at the mesoscopic scale, and bearing a resemblance to standard Boltzmann theory which makes for physical transparency. Originally born to deal with transport in electron-phonon systems, we first generalize it to the case in which spin-orbit coupling is present, and then move on to apply it to specific situations and phenomena. Among these, to the description of the spin Hall effect and of voltage induced spin polarizations in two-dimensional electron gases under a variety of conditions - stationary or time-dependent, in the presence of magnetic and non-magnetic disorder, in the bulk or in confined geometries -, and to the problem of spin relaxation in narrow wires. (orig.)

  6. Power dynamics in adolescent couple relationships and risk of sexually transmitted infections and HIV.

    Science.gov (United States)

    Sanchez, Maria T R; Bermudez, Maripaz; Buela-Casal, Gualberto

    2013-10-01

    The aim of this study was to determine whether there are differences in power distribution between males and females in couple relationships, and whether these differences are associated with risky sexual behaviour in a representative sample of Spanish adolescents. The study also examined the influence of partner's age on the power dynamics that occur in a relationship. The sample comprised 1,223 adolescents attending state and private schools in the 17 autonomous regions in Spain. All adolescents included in the sample were involved in a heterosexual relationship (for at least one month) at the time of evaluation. Relationship control and decision-making dominance were evaluated using the Spanish version of the Sexual Relationship Power Scale. Two further questionnaires were administered to collect sociodemographic data, and data on sexual behaviour. Females showed greater relationship control and greater control over decision-making than males. In the female group, participants with partners five or more years older than them were found to have less control over decision-making, while greater control over decision-making was linked to less exposure to risk. In the male group, participants with partners older than them were found to have greater control over decisionmaking, while relationship control was found to be negatively related to exposure to sexual risk. These results highlight the importance of taking power distribution and gender inequalities in couple relationships into consideration for STI and HIV prevention.

  7. Impact of asymptomatic infection on coupled disease-behavior dynamics in complex networks

    Science.gov (United States)

    Zhang, Hai-Feng; Xie, Jia-Rong; Chen, Han-Shuang; Liu, Can; Small, Michael

    2016-05-01

    Studies on how to model the interplay between diseases and behavioral responses (so-called coupled disease-behavior interaction) have attracted increasing attention. Owing to the lack of obvious clinical evidence of diseases, or the incomplete information related to the disease, the risks of infection cannot be perceived and may lead to inappropriate behavioral responses. Therefore, how to quantitatively analyze the impacts of asymptomatic infection on the interplay between diseases and behavioral responses is of particular importance. In this letter, under the complex network framework, we study the coupled disease-behavior interaction model by dividing infectious individuals into two states: U-state (without evident clinical symptoms, labelled as U) and I-state (with evident clinical symptoms, labelled as I). A susceptible individual can be infected by U- or I-nodes, however, since the U-nodes cannot be easily observed, susceptible individuals take behavioral responses only when they contact I-nodes. The mechanism is considered in the improved Susceptible-Infected-Susceptible (SIS) model and the improved Susceptible-Infected-Recovered (SIR) model, respectively. Then, one of the most concerned problems in spreading dynamics: the epidemic thresholds for the two models are given by two methods. The analytic results quantitatively describe the influence of different factors, such as asymptomatic infection, the awareness rate, the network structure, and so forth, on the epidemic thresholds. Moreover, because of the irreversible process of the SIR model, the suppression effect of the improved SIR model is weaker than the improved SIS model.

  8. Effect of coupling currents on the dynamic inductance during fast transient in superconducting magnets

    Directory of Open Access Journals (Sweden)

    V. Marinozzi

    2015-03-01

    Full Text Available We present electromagnetic models aiming to calculate the variation of the inductance in a magnet due to dynamic effects such as the variation of magnetization or the coupling with eddy currents. The models are studied with special regard to the calculation of the inductance in superconducting magnets which are affected by interfilament coupling currents. The developed models have been compared with experimental data coming from tests of prototype Nb_{3}Sn magnets designed for the new generation of accelerators. This work is relevant for the quench protection study of superconducting magnets: quench is an unwanted event, when part of the magnet becomes resistive; in these cases, the current should be discharged as fast as possible, in order to maintain the resistive zone temperature under a safe limit. The magnet inductance is therefore a relevant term for the description of the current discharge, especially for the high-field new generation superconducting magnets for accelerators, and this work shows how to calculate the correct value during rapid current changes, providing a mean for simulations of the reached temperature.

  9. Inflationary dynamics and preheating of the nonminimally coupled inflaton field in the metric and Palatini formalisms

    Science.gov (United States)

    Fu, Chengjie; Wu, Puxun; Yu, Hongwei

    2017-11-01

    The inflationary dynamics and preheating in a model with a nonminimally coupled inflaton field in the metric and Palatini formalisms are studied in this paper. We find that in both formalisms, irrespective of the initial conditions, our Universe will evolve into a slow-roll inflationary era and then the scalar field rolls into an oscillating phase. The value of the scalar field at the end of the inflation in the Palatini formalism is always larger than that in the metric one, which becomes more and more obvious with the increase of the absolute value of the coupling parameter |ξ |. During the preheating, we find that the inflaton quanta are produced explosively due to the parameter resonance and the growth of inflaton quanta will be terminated by the backreaction. With the increase of |ξ |, the resonance bands gradually close to the zero momentum (k =0 ), and the structure of resonance changes and becomes broader and broader in the metric formalism, while it remains to be narrow in the Palatini formalism. The energy transfer from the inflaton field to the fluctuation becomes more and more efficient with the increase of |ξ |, and in the metric formalism the growth of the efficiency of energy transfer is much faster than that in the Palatini formalism. Therefore, the inflation and preheating show different characteristics in different formalisms.

  10. Analysis of Dynamic Coupling Characteristics of the Slope Reinforced by Sheet Pile Wall

    Directory of Open Access Journals (Sweden)

    H. L. Qu

    2017-01-01

    Full Text Available Large deformation of slope caused by earthquake can lead to the loss of stability of slope and its retaining structures. At present, there have been some research achievements about the slope reinforcement of stabilizing piles. However, due to the complexity of the structural system, the coupling relationship between soil and pile is still not well understood. Hence it is of great necessity to study its dynamic characteristics further. In view of this, a numerical model was established by FLAC3D in this paper, and the deformation and stress nephogram of sheet pile wall in peak ground motion acceleration (PGA at 0.1 g, 0.2 g, and 0.4 g were obtained. Through the analysis, some conclusions were obtained. Firstly, based on the nephogram of motion characteristics and the positions of the slip surface and the retaining wall, the reinforced slope can be divided into 6 sections approximatively, namely, the sliding body parts of A, B, C, D, and E and the bedrock part F. Secondly, the deformation and stress distributions of slope reinforced by sheet pile wall were carefully studied. Based on the results of deformation calculation from time history analysis, the interaction force between structure and soil can be estimated by the difference of peak horizontal displacements, and the structure-soil coupling law under earthquake can be studied by this approach.

  11. Development of a Coupled Framework for Simulating Interactive Effects of Frozen Soil Hydrological Dynamics in Permafrost Regions

    Science.gov (United States)

    2013-11-01

    A. M. 1986. Fictitious domain and domain decomposition methods, Soviet J. Num. Anal. Math . Modelling , 1, 1–86. Nicolsky, D. J., V. E. Romanovsky...climate warming on high latitude ecosystems require a coupled representation of soil thermal state and hydrological dynamics. Such a framework was...The model is the result of coupling the Gridded Surface Subsurface Hydrologic Analysis (GSSHA) model with the Geophysical Institute Permafrost

  12. Coupled Human-Ecological Dynamics and Land Degradation in Global Drylands-A modelling approach (Invited)

    Science.gov (United States)

    Helldén, U.

    2009-12-01

    Drylands comprise one-third of the Earth’s land area. They pose research, management, and policy challenges impacting the livelihoods of 2.5 billion people. Desertification is said to affect some 10-20% of the drylands and is assumed to expand with climate change and population growth. Recent paradigms stress the importance of understanding linkages between human-ecological (H-E) systems in order to achieve sustainable management policies. Understanding coupled H-E systems is difficult at local levels. It represents an even greater challenge at regional scales to guide priorities and policy decisions at national and international levels. System dynamic modelling may help facilitating the probblem. Desertification and land degradation are often modelled and mathematically defined in terms of soil erosion. The soil erosion process is usually described as a function of vegetation ground cover, rainfall characteristics, topography, soil characteristics and land management. On-going research based on system dynamic modelling, focussing on elucidating the inherent complexity of H-E systems across multiple scales, enables an assessment of the relative roles that climate, policy, management, land condition, vulnerability and human adaptation may play in desertification and dryland development. An early approach (1995) to study desertification through an H-E coupled model considered desertification to be stress beyond resilience, i.e. irreversible, using a predator-prey system approach. As most predator-prey models, it was based on two linked differential equations describing the evolution of both a human population (predator) and natural resources (prey) in terms of gains, losses and interaction. A recent effort used a model approach to assess desertification risk through system stability condition analysis. It is based on the assumption that soil erosion and the soil sub-system play an overriding final role in the desertification processes. It is stressing the role and

  13. Control of the dynamics of coupled atomic-molecular Bose-Einstein condensates: Modified Gross-Pitaevskii approach

    International Nuclear Information System (INIS)

    Gupta, Moumita; Dastidar, Krishna Rai

    2009-01-01

    We study the dynamics of the atomic and molecular Bose-Einstein condensates (BECs) of 87 Rb in a spherically symmetric trap coupled by stimulated Raman photoassociation process. Considering the higher order nonlinearity in the atom-atom interaction we analyze the dynamics of the system using coupled modified Gross-Pitaevskii (MGP) equations and compare it with mean-field coupled Gross-Pitaevskii (GP) dynamics. Considerable differences in the dynamics are obtained in these two approaches at large scattering length, i.e., for large values of peak-gas parameter x pk ≥10 -3 . We show how the dynamics of the coupled system is affected when the atom-molecule and molecule-molecule interactions are considered together with the atom-atom interaction and also when the strengths of these three interactions are increased. The effect of detuning on the efficiency of conversion of atomic fractions into molecules is demonstrated and the feasibility of maximum molecular BEC formation by varying the Raman detuning parameter at different values of time is explored. Thus by varying the Raman detuning and the scattering length for atom-atom interaction one can control the dynamics of the coupled atomic-molecular BEC system. We have also solved coupled Gross-Pitaevskii equations for atomic to molecular condensate formation through magnetic Feshbach resonance in a BEC of 85 Rb. We found similar features for oscillations between atomic and molecular condensates noted in previous theoretical study and obtained fairly good agreement with the evolution of total atomic condensate observed experimentally.

  14. Dynamics of a spherically symmetric inhomogeneous coupled dark energy model with coupling term proportional to non relatvistic matter

    Science.gov (United States)

    Izquierdo, Germán; Blanquet-Jaramillo, Roberto C.; Sussman, Roberto A.

    2018-01-01

    The quasi-local scalar variables approach is applied to a spherically symmetric inhomogeneous Lemaître-Tolman-Bondi metric containing a mixture of non-relativistic cold dark matter and coupled dark energy with constant equation of state. The quasi-local coupling term considered is proportional to the quasi-local cold dark matter energy density and a quasi-local Hubble factor-like scalar via a coupling constant α . The autonomous numerical system obtained from the evolution equations is classified for different choices of the free parameters: the adiabatic constant of the dark energy w and α . The presence of a past attractor in a non-physical region of the energy densities phase-space of the system makes the coupling term non physical when the energy flows from the matter to the dark energy in order to avoid negative values of the dark energy density in the past. On the other hand, if the energy flux goes from dark energy to dark matter, the past attractor lies in a physical region. The system is also numerically solved for some interesting initial profiles leading to different configurations: an ever expanding mixture, a scenario where the dark energy is completely consumed by the non-relativistic matter by means of the coupling term, a scenario where the dark energy disappears in the inner layers while the outer layers expand as a mixture of both sources, and, finally, a structure formation toy model scenario, where the inner shells containing the mixture collapse while the outer shells expand.

  15. Involuntary Neuromuscular Coupling between the Thumb and Finger of Stroke Survivors during Dynamic Movement

    Directory of Open Access Journals (Sweden)

    Christopher L. Jones

    2018-03-01

    Full Text Available Finger–thumb coordination is crucial to manual dexterity but remains incompletely understood, particularly following neurological injury such as stroke. While being controlled independently, the index finger and thumb especially must work in concert to perform a variety of tasks requiring lateral or palmar pinch. The impact of stroke on this functionally critical sensorimotor control during dynamic tasks has been largely unexplored. In this study, we explored finger–thumb coupling during close–open pinching motions in stroke survivors with chronic hemiparesis. Two types of perturbations were applied randomly to the index with a novel Cable-Actuated Finger Exoskeleton: a sudden joint acceleration stretching muscle groups of the index finger and a sudden increase in impedance in selected index finger joint(s. Electromyographic signals for specific thumb and index finger muscles, thumb tip trajectory, and index finger joint angles were recorded during each trial. Joint angle perturbations invoked reflex responses in the flexor digitorum superficialis (FDS, first dorsal interossei (FDI, and extensor digitorum communis muscles of the index finger and heteronymous reflex responses in flexor pollicis brevis of the thumb (p < 0.017. Phase of movement played a role as a faster peak reflex response was observed in FDI during opening than during closing (p < 0.002 and direction of perturbations resulted in shorter reflex times for FDS and FDI (p < 0.012 for extension perturbations. Surprisingly, when index finger joint impedance was suddenly increased, thumb tip movement was substantially increased, from 2 to 10 cm (p < 0.001. A greater effect was seen during the opening phase (p < 0.044. Thus, involuntary finger–thumb coupling was present during dynamic movement, with perturbation of the index finger impacting thumb activity. The degree of coupling modulated with the phase of motion. These findings reveal a potential

  16. The physical interactions between p37env-mos and tubulin structures.

    Science.gov (United States)

    Bai, W; Singh, B; Yang, Y; Ramagli, L S; Nash, M; Herzog, N K; Arlinghaus, R B

    1992-03-01

    The c-mos protein has been reported to be complexed with tubulin and to co-localize with microtubules in unfertilized Xenopus eggs as well as in NIH3T3 cells transformed by the Xenopus c-mos gene. We performed experiments to determine whether the viral mos protein, p37v-mos, also associates with tubulin. Both mouse c-mos and v-mos proteins synthesized in vitro co-polymerized with tubulin. Upon incubation at 37 degrees C, essentially all of the mos protein (both viral and cellular) co-polymerized with tubulin, while more than 50% of the tubulin remained in the depolymerized state. The mos-tubulin interaction was specific, as indicated by the insolubility of the v-mos protein following a second cycle of temperature-dependent depolymerization/polymerization. Beta-tubulin was shown to co-precipitate with p37v-mos and to be phosphorylated by the mos kinase in vitro. Although both v-mos and c-mos proteins co-polymerize with tubulin, p37v-mos behaved differently from p39c-mos on gel filtration columns under conditions that favor disassembly of microtubules. Like Xenopus c-mos, the bulk of the mouse c-mos protein synthesized in vitro appeared in structures that fractionate at about 500 kDa. In contrast to c-mos, the majority of the v-mos protein, either isolated from stably transformed NIH3T3 cells or synthesized in vitro, eluted in the 100 kDa fraction, co-fractionating with tubulin dimers. Therefore, the v-mos protein appears to have a higher affinity for unpolymerized tubulin than c-mos, under conditions that favor disassembly of microtubules.

  17. Misato Controls Mitotic Microtubule Generation by Stabilizing the TCP-1 Tubulin Chaperone Complex [corrected].

    Science.gov (United States)

    Palumbo, Valeria; Pellacani, Claudia; Heesom, Kate J; Rogala, Kacper B; Deane, Charlotte M; Mottier-Pavie, Violaine; Gatti, Maurizio; Bonaccorsi, Silvia; Wakefield, James G

    2015-06-29

    Mitotic spindles are primarily composed of microtubules (MTs), generated by polymerization of α- and β-Tubulin hetero-dimers. Tubulins undergo a series of protein folding and post-translational modifications in order to fulfill their functions. Defects in Tubulin polymerization dramatically affect spindle formation and disrupt chromosome segregation. We recently described a role for the product of the conserved misato (mst) gene in regulating mitotic MT generation in flies, but the molecular function of Mst remains unknown. Here, we use affinity purification mass spectrometry (AP-MS) to identify interacting partners of Mst in the Drosophila embryo. We demonstrate that Mst associates stoichiometrically with the hetero-octameric Tubulin Chaperone Protein-1 (TCP-1) complex, with the hetero-hexameric Tubulin Prefoldin complex, and with proteins having conserved roles in generating MT-competent Tubulin. We show that RNAi-mediated in vivo depletion of any TCP-1 subunit phenocopies the effects of mutations in mst or the Prefoldin-encoding gene merry-go-round (mgr), leading to monopolar and disorganized mitotic spindles containing few MTs. Crucially, we demonstrate that Mst, but not Mgr, is required for TCP-1 complex stability and that both the efficiency of Tubulin polymerization and Tubulin stability are drastically compromised in mst mutants. Moreover, our structural bioinformatic analyses indicate that Mst resembles the three-dimensional structure of Tubulin monomers and might therefore occupy the TCP-1 complex central cavity. Collectively, our results suggest that Mst acts as a co-factor of the TCP-1 complex, playing an essential role in the Tubulin-folding processes required for proper assembly of spindle MTs. Copyright © 2015 The Authors. Published by Elsevier Ltd.. All rights reserved.

  18. The Coupling of Back-arc Extension, Extrusion and Subduction Dynamics in the Eastern Mediterranean

    Science.gov (United States)

    Capitanio, Fabio A.

    2017-04-01

    Extension in the Aegean Sea and lateral Anatolian extrusion are contrasting and seemingly unrelated examples of continental tectonics In the Eastern Mediterranean. It is acknowledged that these must reconcile with the dynamics of Tethys closure and following continental collision along the convergent margin, however the underlying mechanisms have been difficult to pinpoint, thus far. Three-dimensional numerical modelling of the dynamics of subduction and coupling with the mantle and upper plates allows probing the evolution of similar areas, supporting inferences on the ultimate causes for the continental tectonics. I will present models that reproduce the force balance of subducting slabs' buoyancy, mantle flow and upper plate interiors, and emphasise the role of perturbations in the force balance that may have followed slab breakoff, collision and trench land-locking reconstructed during the oceanic closure in the Eastern Mediterranean. These perturbations lead to a range of different margin motions and strain regimes in the upper plate, from rollback and back-arc spreading, to indentation and extrusion along the collisional margin. Different spatial and temporal fingerprints are illustrated for these processes, and while the trench rollback and back-arc spreading are rather stable features, extrusion is transient. When these regimes overlap, rapid and complex rearrangements of the tectonics in the upper plate are the result. The remarkable similarity between the models' and the Eastern Mediterranean tectonic regimes and geophysical observable allows proposing viable driving mechanisms and support inferences on the Miocene-to-Pliocene evolution of this puzzling area.

  19. Finite-temperature orbital-free DFT molecular dynamics: Coupling PROFESS and QUANTUM ESPRESSO

    Science.gov (United States)

    Karasiev, Valentin V.; Sjostrom, Travis; Trickey, S. B.

    2014-12-01

    Implementation of orbital-free free-energy functionals in the PROFESS code and the coupling of PROFESS with the QUANTUM ESPRESSO code are described. The combination enables orbital-free DFT to drive ab initio molecular dynamics simulations on the same footing (algorithms, thermostats, convergence parameters, etc.) as for Kohn-Sham (KS) DFT. All the non-interacting free-energy functionals implemented are single-point: the local density approximation (LDA; also known as finite-T Thomas-Fermi, ftTF), the second-order gradient approximation (SGA or finite-T gradient-corrected TF), and our recently introduced finite-T generalized gradient approximations (ftGGA). Elimination of the KS orbital bottleneck via orbital-free methodology enables high-T simulations on ordinary computers, whereas those simulations would be costly or even prohibitively time-consuming for KS molecular dynamics (MD) on very high-performance computer systems. Example MD simulations on H over a temperature range 2000 K ≤ T ≤4,000,000 K are reported, with timings on small clusters (16-128 cores) and even laptops. With respect to KS-driven calculations, the orbital-free calculations are between a few times through a few hundreds of times faster.

  20. Weakly Coupled Distributed Calculation of Lyapunov Exponents for Non-Linear Dynamical Systems

    Directory of Open Access Journals (Sweden)

    Jorge J. Hernández-Gómez

    2017-12-01

    Full Text Available Numerical estimation of Lyapunov exponents in non-linear dynamical systems results in a very high computational cost. This is due to the large-scale computational cost of several Runge–Kutta problems that need to be calculated. In this work we introduce a parallel implementation based on MPI (Message Passing Interface for the calculation of the Lyapunov exponents for a multidimensional dynamical system, considering a weakly coupled algorithm. Since we work on an academic high-latency cluster interconnected with a gigabit switch, the design has to be oriented to reduce the number of messages required. With the design introduced in this work, the computing time is drastically reduced, and the obtained performance leads to close to optimal speed-up ratios. The implemented parallelisation allows us to carry out many experiments for the calculation of several Lyapunov exponents with a low-cost cluster. The numerical experiments showed a high scalability, which we showed with up to 68 cores.

  1. Probing the Chaotic Dynamics of Fluids using Insights from Coupled Map Lattices

    Science.gov (United States)

    Barbish, Johnathon; Xu, Mu; Paul, Mark

    2017-11-01

    Many difficult fluid challenges exhibit high-dimensional spatiotemporal chaos. Natural examples include the dynamics of the atmosphere and oceans. New insights have been gained by studying canonical fluid problems such as Rayleigh-Bénard convection where significant progress has been made using large-scale computations of the partial differential equations that describe the fluid flow. However, these computations remain very expensive which makes it difficult, if not currently impossible, to explore new ideas that require large sample sets, vast sweeps of parameter space, and long-time statistics. We study these questions using coupled map lattices (CML) in one and two dimensions. We compute the covariant Lyapunov vectors to probe fundamental features of the CML's including the Lyapunov spectrum, fractal dimension, and the principal angle between the stable and unstable manifolds. We are particularly interested in the role of a conservation law on the chaotic dynamics, the use of ideas from equilibrium thermodynamics to yield a coarse-grained representation, and in the development of reduced order models. This work is supported by NSF DMS-1622299.

  2. Coupling of electromagnetics and structural/fluid dynamics - application to the dual coolant blanket subjected to plasma disruptions

    International Nuclear Information System (INIS)

    Jordan, T.

    1996-01-01

    Some aspects concerning the coupling of quasi-stationary electromagnetics and the dynamics of structure and fluid are investigated. The necessary equations are given in a dimensionless form. The dimensionless parameters in these equations are used to evaluate the importance of the different coupling effects. A finite element formulation of the eddy-current damping in solid structures is developed. With this formulation, an existing finite element method (FEM) structural dynamics code is extended and coupled to an FEM eddy-current code. With this program system, the influence of the eddy-current damping on the dynamic loading of the dual coolant blanket during a centered plasma disruption is determined. The analysis proves that only in loosely fixed or soft structures will eddy-current damping considerably reduce the resulting stresses. Additionally, the dynamic behavior of the liquid metal in the blankets' poloidal channels is described with a simple two-dimensional magnetohydrodynamic approach. The analysis of the dimensionless parameters shows that for small-scale experiments, which are designed to model the coupled electromagnetic and structural/fluid dynamic effects in such a blanket, the same magnetic fields must be applied as in the real fusion device. This will be the easiest way to design experiments that produce transferable results. 10 refs., 7 figs

  3. High-Performance Modeling of Carbon Dioxide Sequestration by Coupling Reservoir Simulation and Molecular Dynamics

    KAUST Repository

    Bao, Kai

    2015-10-26

    The present work describes a parallel computational framework for carbon dioxide (CO2) sequestration simulation by coupling reservoir simulation and molecular dynamics (MD) on massively parallel high-performance-computing (HPC) systems. In this framework, a parallel reservoir simulator, reservoir-simulation toolbox (RST), solves the flow and transport equations that describe the subsurface flow behavior, whereas the MD simulations are performed to provide the required physical parameters. Technologies from several different fields are used to make this novel coupled system work efficiently. One of the major applications of the framework is the modeling of large-scale CO2 sequestration for long-term storage in subsurface geological formations, such as depleted oil and gas reservoirs and deep saline aquifers, which has been proposed as one of the few attractive and practical solutions to reduce CO2 emissions and address the global-warming threat. Fine grids and accurate prediction of the properties of fluid mixtures under geological conditions are essential for accurate simulations. In this work, CO2 sequestration is presented as a first example for coupling reservoir simulation and MD, although the framework can be extended naturally to the full multiphase multicomponent compositional flow simulation to handle more complicated physical processes in the future. Accuracy and scalability analysis are performed on an IBM BlueGene/P and on an IBM BlueGene/Q, the latest IBM supercomputer. Results show good accuracy of our MD simulations compared with published data, and good scalability is observed with the massively parallel HPC systems. The performance and capacity of the proposed framework are well-demonstrated with several experiments with hundreds of millions to one billion cells. To the best of our knowledge, the present work represents the first attempt to couple reservoir simulation and molecular simulation for large-scale modeling. Because of the complexity of

  4. Influence of slab length on dynamic characteristics of subway train-steel spring floating slab track-tunnel coupled system

    OpenAIRE

    Xu, Qing-yuan; Yan, Bin; Lou, Ping; Zhou, Xiao-lin

    2015-01-01

    A subway train-steel spring floating slab track-tunnel coupling dynamic model, considering short and middle-long wavelength random track irregularities, and longitudinal connection between adjacent slabs of steel spring floating slab track, was developed. And the influence of slab length on dynamic characteristics of the system under different track conditions and train speeds are theoretically studied. The calculated results show: (1) In general, the acceleration of each component of the cou...

  5. Coupled Static and Dynamic Buckling Modelling of Thin-Walled Structures in Elastic Range Review of Selected Problems

    Directory of Open Access Journals (Sweden)

    Kołakowski Zbigniew

    2016-06-01

    Full Text Available A review of papers that investigate the static and dynamic coupled buckling and post-buckling behaviour of thin-walled structures is carried out. The problem of static coupled buckling is sufficiently well-recognized. The analysis of dynamic interactive buckling is limited in practice to columns, single plates and shells. The applications of finite element method (FEM or/and analytical-numerical method (ANM to solve interaction buckling problems are on-going. In Poland, the team of scientists from the Department of Strength of Materials, Lodz University of Technology and co-workers developed the analytical-numerical method. This method allows to determine static buckling stresses, natural frequencies, coefficients of the equation describing the post-buckling equilibrium path and dynamic response of the plate structure subjected to compression load and/or bending moment. Using the dynamic buckling criteria, it is possible to determine the dynamic critical load. They presented a lot of interesting results for problems of the static and dynamic coupled buckling of thin-walled plate structures with complex shapes of cross-sections, including an interaction of component plates. The most important advantage of presented analytical-numerical method is that it enables to describe all buckling modes and the post-buckling behaviours of thin-walled columns made of different materials. Thin isotropic, orthotropic or laminate structures were considered.

  6. Establishment and verification of three-dimensional dynamic model for heavy-haul train-track coupled system

    Science.gov (United States)

    Liu, Pengfei; Zhai, Wanming; Wang, Kaiyun

    2016-11-01

    For the long heavy-haul train, the basic principles of the inter-vehicle interaction and train-track dynamic interaction are analysed firstly. Based on the theories of train longitudinal dynamics and vehicle-track coupled dynamics, a three-dimensional (3-D) dynamic model of the heavy-haul train-track coupled system is established through a modularised method. Specifically, this model includes the subsystems such as the train control, the vehicle, the wheel-rail relation and the line geometries. And for the calculation of the wheel-rail interaction force under the driving or braking conditions, the large creep phenomenon that may occur within the wheel-rail contact patch is considered. For the coupler and draft gear system, the coupler forces in three directions and the coupler lateral tilt angles in curves are calculated. Then, according to the characteristics of the long heavy-haul train, an efficient solving method is developed to improve the computational efficiency for such a large system. Some basic principles which should be followed in order to meet the requirement of calculation accuracy are determined. Finally, the 3-D train-track coupled model is verified by comparing the calculated results with the running test results. It is indicated that the proposed dynamic model could simulate the dynamic performance of the heavy-haul train well.

  7. Phenolphthalein induces centrosome amplification and tubulin depolymerization in vitro.

    Science.gov (United States)

    Heard, Pamela L; Rubitski, Elizabeth E; Spellman, Richard A; Schuler, Maik J

    2013-06-01

    Aneuploidy is a major cause of human reproductive failure and plays a large role in cancer. Phenolphthalein (PHT) induces tumors in rodents but its primary mechanism does not seem to be DNA damage. In heterozygous TSG-p53(®) mice, PHT induces lymphomas and also micronuclei (MN), many containing kinetochores (K), implying chromosome loss (aneuploidy). The induction of aneuploidy would be compatible with the loss of the normal p53 gene seen in the lymphomas. In this study, we confirm PHT's aneugenicity and determine the aneugenic mechanism of PHT by combining traditional genetic toxicology assays with image and flow cytometry methods. The data revealed that PHT induces tubulin polymerization abnormalities and deregulates the centrosome duplication cycle causing centrosome amplification. We also show that one of the consequences of these events is apoptosis. Copyright © 2013 Wiley Periodicals, Inc.

  8. Urban street canyons: Coupling dynamics, chemistry and within-canyon chemical processing of emissions

    Science.gov (United States)

    Bright, Vivien Bianca; Bloss, William James; Cai, Xiaoming

    2013-04-01

    Street canyons, formed by rows of buildings in urban environments, are associated with high levels of atmospheric pollutants emitted primarily from vehicles, and substantial human exposure. The street canyon forms a semi-enclosed environment, within which emissions may be entrained in a re-circulatory system; chemical processing of emitted compounds alters the composition of the air vented to the overlying boundary layer, compared with the primary emissions. As the prevailing atmospheric chemistry is highly non-linear, and the canyon mixing and predominant chemical reaction timescales are comparable, the combined impacts of dynamics and chemistry must be considered to quantify these effects. Here we report a model study of the coupled impacts of dynamical and chemical processing upon the atmospheric composition in a street canyon environment, to assess the impacts upon air pollutant levels within the canyon, and to quantify the extent to which within-canyon chemical processing alters the composition of canyon outflow, in comparison to the primary emissions within the canyon. A new model for the simulation of street canyon atmospheric chemical processing has been developed, by integrating an existing Large-Eddy Simulation (LES) dynamical model of canyon atmospheric motion with a detailed chemical reaction mechanism, a Reduced Chemical Scheme (RCS) comprising 51 chemical species and 136 reactions, based upon a subset of the Master Chemical Mechanism (MCM). The combined LES-RCS model is used to investigate the combined effects of mixing and chemical processing upon air quality within an idealised street canyon. The effect of the combination of dynamical (segregation) and chemical effects is determined by comparing the outputs of the full LES-RCS canyon model with those obtained when representing the canyon as a zero-dimensional box model (i.e. assuming mixing is complete and instantaneous). The LES-RCS approach predicts lower (canyon-averaged) levels of NOx, OH and HO

  9. Phase-space-Lagrangian action principle and the generalized K-X theorem. [in covariant coupled equations for plasma dynamics

    Science.gov (United States)

    Kaufman, Allan N.

    1987-01-01

    The covariant coupled equations for plasma dynamics and the Maxwell field are expressed as a phase-space-Lagrangian action principle. The linear interaction is transformed to the bilinear beat Hamiltonian by a gauge-invariant Lagrangian Lie transform. The result yields the generalized linear susceptibility directly.

  10. Physics and dynamics coupling across scales in the next generation CESM: Meeting the challenge of high resolution. Final report

    Energy Technology Data Exchange (ETDEWEB)

    Larson, Vincent E.

    2015-02-21

    This is a final report for a SciDAC grant supported by BER. The project implemented a novel technique for coupling small-scale dynamics and microphysics into a community climate model. The technique uses subcolumns that are sampled in Monte Carlo fashion from a distribution of subgrid variability. The resulting global simulations show several improvements over the status quo.

  11. Structural Model for Tubulin Recognition and Deformation by Kinesin-13 Microtubule Depolymerases

    Directory of Open Access Journals (Sweden)

    Ana B. Asenjo

    2013-03-01

    Full Text Available To elucidate the structural basis of the mechanism of microtubule depolymerization by kinesin-13s, we analyzed complexes of tubulin and the Drosophila melanogaster kinesin-13 KLP10A by electron microscopy (EM and fluorescence polarization microscopy. We report a nanometer-resolution (1.1 nm cryo-EM three-dimensional structure of the KLP10A head domain (KLP10AHD bound to curved tubulin. We found that binding of KLP10AHD induces a distinct tubulin configuration with displacement (shear between tubulin subunits in addition to curvature. In this configuration, the kinesin-binding site differs from that in straight tubulin, providing an explanation for the distinct interaction modes of kinesin-13s with the microtubule lattice or its ends. The KLP10AHD-tubulin interface comprises three areas of interaction, suggesting a crossbow-type tubulin-bending mechanism. These areas include the kinesin-13 family conserved KVD residues, and as predicted from the crossbow model, mutating these residues changes the orientation and mobility of KLP10AHDs interacting with the microtubule.

  12. Interaction of Pseudolaric Acid B with The Colchicine Site of Tubulin

    Science.gov (United States)

    Sarkar, Taradas; Nguyen, Tam Luong; Su, Zhi-Wei; Hao, Jun; Bai, Ruoli; Gussio, Rick; Qiu, Samuel X.; Hamel, Ernest

    2012-01-01

    We purified pseudolaric acid B (PAB) from the root and stem bark of Pseudolarix kaempferi (Lindl.) Gorden. Confirming previous findings, we found that the compound had high nanomolar IC50 antiproliferative effects in several cultured cell lines, causing mitotic arrest and the disappearance of intracellular microtubules. PAB strongly inhibited tubulin assembly (IC50, 1.1 μM) but weakly inhibited the binding of colchicine to tubulin, as demonstrated by fluorescence and with [3H]colchicine. Kinetic analysis demonstrated that the mechanism of inhibition was competitive, with an apparent Ki of 12-15 μM. Indirect studies demonstrated that PAB bound rapidly to tubulin and dissociated more rapidly from tubulin than the colchicine analog 2-methoxy-5-(2′,3′,4′-trimethoxyphenyl)tropone, whose complex with tubulin is known to have a half-life of 17 s at 37 °C. We modeled PAB into the colchicine site of tubulin, using the crystal structure 1SA0 that contains two αβ-tubulin heterodimers, both bound to a colchicinoid and to a stathmin fragment. The binding model of PAB revealed common pharmacophoric features between PAB and colchicinoids, not readily apparent from their chemical structures. PMID:22634405

  13. Novel α-Tubulin Mutations Conferring Resistance to Dinitroaniline Herbicides in Lolium rigidum

    Directory of Open Access Journals (Sweden)

    Zhizhan Chu

    2018-02-01

    Full Text Available The dinitroaniline herbicides (particularly trifluralin have been globally used in many crops for selective grass weed control. Consequently, trifluralin resistance has been documented in several important crop weed species and has recently reached a level of concern in Australian Lolium rigidum populations. Here, we report novel mutations in the L. rigidum α-tubulin gene which confer resistance to trifluralin and other dinitroaniline herbicides. Nucleotide mutations at the highly conserved codon Arg-243 resulted in amino acid substitutions of Met or Lys. Rice calli transformed with the mutant 243-Met or 243-Lys α-tubulin genes were 4- to 8-fold more resistant to trifluralin and other dinitroaniline herbicides (e.g., ethalfluralin and pendimethalin compared to calli transformed with the wild type α-tubulin gene from L. rigidum. Comprehensive modeling of molecular docking predicts that Arg-243 is close to the trifluralin binding site on the α-tubulin surface and that replacement of Arg-243 by Met/Lys-243 results in a spatial shift of the trifluralin binding domain, reduction of trifluralin-tubulin contacts, and unfavorable interactions. The major effect of these substitutions is a significant rise of free interaction energy between α-tubulin and trifluralin, as well as between trifluralin and its whole molecular environment. These results demonstrate that the Arg-243 residue in α-tubulin is a determinant for trifluralin sensitivity, and the novel Arg-243-Met/Lys mutations may confer trifluralin resistance in L. rigidum.

  14. Crosstalk error correction through dynamical decoupling of single-qubit gates in capacitively coupled singlet-triplet semiconductor spin qubits

    Science.gov (United States)

    Buterakos, Donovan; Throckmorton, Robert E.; Das Sarma, S.

    2018-01-01

    In addition to magnetic field and electric charge noise adversely affecting spin-qubit operations, performing single-qubit gates on one of multiple coupled singlet-triplet qubits presents a new challenge: crosstalk, which is inevitable (and must be minimized) in any multiqubit quantum computing architecture. We develop a set of dynamically corrected pulse sequences that are designed to cancel the effects of both types of noise (i.e., field and charge) as well as crosstalk to leading order, and provide parameters for these corrected sequences for all 24 of the single-qubit Clifford gates. We then provide an estimate of the error as a function of the noise and capacitive coupling to compare the fidelity of our corrected gates to their uncorrected versions. Dynamical error correction protocols presented in this work are important for the next generation of singlet-triplet qubit devices where coupling among many qubits will become relevant.

  15. Coupling dynamic modeling and simulation of three-degree-of-freedom micromanipulator based on piezoelectric ceramic of fuzzy PID

    Science.gov (United States)

    Li, Dongjie; Fu, Yu; Yang, Liu

    2017-08-01

    For further research on the microparticles trajectory in the process of micromanipulation, the paper modeled on the coupling dynamic of three-degree-of-freedom micromanipulator which is based on piezoelectric ceramic. In the micromanipulation, the transformation of certain movement direction can generate a corresponding change in the coupling in three-degree-of-freedom micromanipulator movement, the fuzzy PID method was adopted by the control system of this study, and the modeling analysis was performed on the control system. After completing the above modeling, the simulation model is built by the MATLAB Simulink software. The simulation output results are basically in accordance with the actual trajectory, which achieve the successful research purposes of coupling dynamics model for three-degree-of-freedom micromanipulator and application of fuzzy PID method.

  16. The interplay between tubulins and P450 cytochromes during Plasmodium berghei invasion of Anopheles gambiae midgut.

    Directory of Open Access Journals (Sweden)

    Rute C Félix

    Full Text Available BACKGROUND: Plasmodium infection increases the oxidative stress inside the mosquito, leading to a significant alteration on transcription of Anopheles gambiae detoxification genes. Among these detoxification genes several P450 cytochromes and tubulins were differently expressed, suggesting their involvement in the mosquito's response to parasite invasion. P450 cytochromes are usually involved in the metabolism and detoxification of several compounds, but are also regulated by several pathogens, including malaria parasite. Tubulins are extremely important as components of the cytoskeleton, which rearrangement functions as a response to malaria parasite invasion. METHODOLOGY/PRINCIPAL FINDINGS: Gene silencing methods were used to uncover the effects of cytochrome P450 reductase, tubulinA and tubulinB silencing on the A. gambiae response to Plasmodium berghei invasion. The role of tubulins in counter infection processes was also investigated by inhibiting their effect. Colchicine, vinblastine and paclitaxel, three different tubulin inhibitors were injected into A. gambiae mosquitoes. Twenty-four hours post injection these mosquitoes were infected with P. berghei through a blood meal from infected CD1 mice. Cytochrome P450 gene expression was measured using RT-qPCR to detect differences in cytochrome expression between silenced, inhibited and control mosquitoes. Results showed that cytochrome P450 reductase silencing, as well as tubulin (A and B silencing and inhibition affected the efficiency of Plasmodium infection. Silencing and inhibition also affected the expression levels of cytochromes P450. CONCLUSIONS: Our results suggest the existence of a relationship between tubulins and P450 cytochromes during A. gambiae immune response to P. berghei invasion. One of the P450 cytochromes in this study, CYP6Z2, stands out as the potential link in this association. Further work is needed to fully understand the role of tubulin genes in the response to

  17. Molecular recognition of epothilones by microtubules and tubulin dimers revealed by biochemical and NMR approaches.

    Science.gov (United States)

    Canales, Angeles; Nieto, Lidia; Rodríguez-Salarichs, Javier; Sánchez-Murcia, Pedro A; Coderch, Claire; Cortés-Cabrera, Alvaro; Paterson, Ian; Carlomagno, Teresa; Gago, Federico; Andreu, José M; Altmann, Karl-Heinz; Jiménez-Barbero, Jesús; Díaz, J Fernando

    2014-04-18

    The binding of epothilones to dimeric tubulin and to microtubules has been studied by means of biochemical and NMR techniques. We have determined the binding constants of epothilone A (EpoA) and B (EpoB) to dimeric tubulin, which are 4 orders of magnitude lower than those for microtubules, and we have elucidated the conformation and binding epitopes of EpoA and EpoB when bound to tubulin dimers and microtubules in solution. The determined conformation of epothilones when bound to dimeric tubulin is similar to that found by X-ray crystallographic techniques for the binding of EpoA to the Tubulin/RB3/TTL complex; it is markedly different from that reported for EpoA bound to zinc-induced sheets obtained by electron crystallography. Likewise, only the X-ray structure of EpoA bound to the Tubulin/RB3/TTL complex at the luminal site, but not the electron crystallography structure, is compatible with the results obtained by STD on the binding epitope of EpoA bound to dimeric tubulin, thus confirming that the allosteric change (structuring of the M-loop) is the biochemical mechanism of induction of tubulin assembly by epothilones. TR-NOESY signals of EpoA bound to microtubules have been obtained, supporting the interaction with a transient binding site with a fast exchange rate (pore site), consistent with the notion that epothilones access the luminal site through the pore site, as has also been observed for taxanes. Finally, the differences in the tubulin binding affinities of a series of epothilone analogues has been quantitatively explained using the newly determined binding pose and the COMBINE methodology.

  18. Tubulin cofactor B regulates microtubule densities during microglia transition to the reactive states

    International Nuclear Information System (INIS)

    Fanarraga, M.L.; Villegas, J.C.; Carranza, G.; Castano, R.; Zabala, J.C.

    2009-01-01

    Microglia are highly dynamic cells of the CNS that continuously survey the welfare of the neural parenchyma and play key roles modulating neurogenesis and neuronal cell death. In response to injury or pathogen invasion parenchymal microglia transforms into a more active cell that proliferates, migrates and behaves as a macrophage. The acquisition of these extra skills implicates enormous modifications of the microtubule and actin cytoskeletons. Here we show that tubulin cofactor B (TBCB), which has been found to contribute to various aspects of microtubule dynamics in vivo, is also implicated in microglial cytoskeletal changes. We find that TBCB is upregulated in post-lesion reactive parenchymal microglia/macrophages, in interferon treated BV-2 microglial cells, and in neonate amoeboid microglia where the microtubule densities are remarkably low. Our data demonstrate that upon TBCB downregulation both, after microglia differentiation to the ramified phenotype in vivo and in vitro, or after TBCB gene silencing, microtubule densities are restored in these cells. Taken together these observations support the view that TBCB functions as a microtubule density regulator in microglia during activation, and provide an insight into the understanding of the complex mechanisms controlling microtubule reorganization during microglial transition between the amoeboid, ramified, and reactive phenotypes

  19. Discontinuous Galerkin modeling of the Columbia River's coupled estuary-plume dynamics

    Science.gov (United States)

    Vallaeys, Valentin; Kärnä, Tuomas; Delandmeter, Philippe; Lambrechts, Jonathan; Baptista, António M.; Deleersnijder, Eric; Hanert, Emmanuel

    2018-04-01

    The Columbia River (CR) estuary is characterized by high river discharge and strong tides that generate high velocity flows and sharp density gradients. Its dynamics strongly affects the coastal ocean circulation. Tidal straining in turn modulates the stratification in the estuary. Simulating the hydrodynamics of the CR estuary and plume therefore requires a multi-scale model as both shelf and estuarine circulations are coupled. Such a model has to keep numerical dissipation as low as possible in order to correctly represent the plume propagation and the salinity intrusion in the estuary. Here, we show that the 3D baroclinic discontinuous Galerkin finite element model SLIM 3D is able to reproduce the main features of the CR estuary-to-ocean continuum. We introduce new vertical discretization and mode splitting that allow us to model a region characterized by complex bathymetry and sharp density and velocity gradients. Our model takes into account the major forcings, i.e. tides, surface wind stress and river discharge, on a single multi-scale grid. The simulation period covers the end of spring-early summer of 2006, a period of high river flow and strong changes in the wind regime. SLIM 3D is validated with in-situ data on the shelf and at multiple locations in the estuary and compared with an operational implementation of SELFE. The model skill in the estuary and on the shelf indicate that SLIM 3D is able to reproduce the key processes driving the river plume dynamics, such as the occurrence of bidirectional plumes or reversals of the inner shelf coastal currents.

  20. Forest succession and climate change: Coupling land-surface processes and ecological dynamics

    International Nuclear Information System (INIS)

    Martin, P.

    1990-01-01

    Growing evidence supports the hypothesis that humans are in the process of inadvertently modifying the Earth's climate by increasing the atmospheric concentrations of carbon dioxide and other radiatively active trace gas. The present man-induced climate change, often referred to as the greenhouse effect, is different from natural changes because of its unprecedented pace and the incomplete knowledge of its consequences. As some scientists put it, humanity is performing on itself a 'global experiment' which may entail a number of surprises. The potential changes in the behavior of atmosphere/biosphere interactions are of particular importance. Such changes could affect atmospheric dynamics, the local and regional hydrology, the global bio-geochemistry, and therefore, human societies. Five distinct aspects of climate/vegetation interactions are examined. First, the climatically and physiologically mediated impacts of increases in the concentration of carbon dioxide on the evaporation from agricultural crops, grassland, and forests are investigated using the Penman-Monteith combination equation. Second, the degree of coupling between the vegetation and the atmosphere, as defined by Jarvis and McNaughton, is reexamined taking radiative losses from the vegetation to the atmosphere into account. Third, the effects of changes in the mean vs. the variance of climatic variables are investigated using a modified version of the forest dynamics model developed by Pastor and Post, LINK-AGES. Fourth, using the same model, changes in the production of non-methane hydrocarbons are estimated as climate and/or vegetation change. Finally, the main focus is on the response of forests to climatic changes using a model treating the physics of energy and water exchange in detail

  1. Suppression of chaos at slow variables by rapidly mixing fast dynamics through linear energy-preserving coupling

    Science.gov (United States)

    Abramov, R. V.

    2011-12-01

    Chaotic multiscale dynamical systems are common in many areas of science, one of the examples being the interaction of the low-frequency dynamics in the atmosphere with the fast turbulent weather dynamics. One of the key questions about chaotic multiscale systems is how the fast dynamics affects chaos at the slow variables, and, therefore, impacts uncertainty and predictability of the slow dynamics. Here we demonstrate that the linear slow-fast coupling with the total energy conservation property promotes the suppression of chaos at the slow variables through the rapid mixing at the fast variables, both theoretically and through numerical simulations. A suitable mathematical framework is developed, connecting the slow dynamics on the tangent subspaces to the infinite-time linear response of the mean state to a constant external forcing at the fast variables. Additionally, it is shown that the uncoupled dynamics for the slow variables may remain chaotic while the complete multiscale system loses chaos and becomes completely predictable at the slow variables through increasing chaos and turbulence at the fast variables. This result contradicts the common sense intuition, where, naturally, one would think that coupling a slow weakly chaotic system with another much faster and much stronger chaotic system would result in general increase of chaos at the slow variables.

  2. Tubulin posttranslational modifications induced by cadmium in the sponge Clathrina clathrus

    Energy Technology Data Exchange (ETDEWEB)

    Ledda, F.D., E-mail: f.ledda@hotmail.it [Dipartimento di Scienze della Terra, dell’Ambiente e della Vita (DISTAV), Università di Genova, Corso Europa 26, I-16132 Genova (Italy); Dipartimento di Scienze della Natura e del Territorio (DIPNET), Università di Sassari, Via Muroni 25, I-07100 Sassari (Italy); Ramoino, P. [Dipartimento di Scienze della Terra, dell’Ambiente e della Vita (DISTAV), Università di Genova, Corso Europa 26, I-16132 Genova (Italy); Ravera, S. [Dipartimento di Farmacia (DIFAR), Viale Cembrano 4, I-16147 Genova (Italy); Perino, E. [Dipartimento di Scienze della Terra, dell’Ambiente e della Vita (DISTAV), Università di Genova, Corso Europa 26, I-16132 Genova (Italy); Bianchini, P. [Istituto Italiano di Tecnologia (IIT), Dipartimento di Nanofisica, Via Morego 30, I-16163 Genova (Italy); Diaspro, A. [Istituto Italiano di Tecnologia (IIT), Dipartimento di Nanofisica, Via Morego 30, I-16163 Genova (Italy); Dipartimento di Fisica (DIFI), Università di Genova, Via Dodecaneso 33, I-16146 Genova (Italy); Gallus, L.; Pronzato, R. [Dipartimento di Scienze della Terra, dell’Ambiente e della Vita (DISTAV), Università di Genova, Corso Europa 26, I-16132 Genova (Italy); Manconi, R. [Dipartimento di Scienze della Natura e del Territorio (DIPNET), Università di Sassari, Via Muroni 25, I-07100 Sassari (Italy)

    2013-09-15

    Highlights: •The effect of Cd{sup 2+} on Clathrina clathrus microtubule network was studied. •Cd{sup 2+} exposure increases acetylated and detyrosinated α-tubulin levels. •Microtubules enriched in acetylated/detyrosinated α-tubulin were resistant to cold. •Clathrina clathrus exposed to Cd{sup 2+} showed cytoplasmic microtubules with an enhanced stability. -- Abstract: As sessile filter feeders, sponges are exposed to environmental stress due to pollutants of both anthropogenic and natural origins and are able to accumulate harmful substances. Thus, sponges are considered a good tool for the biomonitoring of coastal areas. In this study, we used biochemical and immunocytochemical analyses to provide new data on the cadmium-related changes in sponge cells. In particular, we analyzed the effects of different concentrations of cadmium on the microtubule network in the calcisponge Clathrina clathrus. Quantitative densitometry of the immunoblots showed that, while the levels of α- and β-tubulin remained relatively constant in C. clathrus when exposed to 1 and 5 μM CdCl{sub 2}, there were progressive shifts in the levels of some tubulin isoforms. Exposure for 24 h to sublethal concentrations of cadmium reduced the level of tyrosinated α-tubulin and enhanced the levels of acetylated and detyrosinated α-tubulin relative to the levels in controls. Confocal microscopy analysis of immunolabeled tissue sections showed that the inhibitory effect of cadmium was associated with a decrease in the labeling of the cells with a monoclonal antibody that recognizes tyrosinated α-tubulin. By contrast, the reactivity with a monoclonal antibody that recognizes acetylated α-tubulin and with a polyclonal antibody specific for detyrosinated α-tubulin was enhanced at the same time points. Because the acetylation and detyrosination of α-tubulin occur on stable microtubules, the marked enhancement of α-tubulin acetylation and detyrosination in Cd{sup 2+}-treated cells

  3. Molecular characterization of beta-tubulin gene from Pleurotus sajor-caju.

    Science.gov (United States)

    Kim, B G; Yoo, Y B; Kwon, S T; Magae, Y

    2001-10-01

    A beta-tubulin gene (TUB1) from the basidiomycete Pleurotus sajor-caju was sequenced. TUB1 encodes a 446-amino-acid protein. The coding region is interrupted by 9 introns, all of which had a 5'-GTRNGT... YAG-3' sequence at the boundaries. Locations of the introns in TUB1 were common between the beta-tubulin genes of other basidiomycetes, but not with animals, ascomycetes, or plants. This suggests that the introns were inserted independently into the beta-tubulin gene after these divisions had diverged.

  4. Functional role of ɛ-tubulin in the assembly of the centriolar microtubule scaffold

    Science.gov (United States)

    Dupuis-Williams, Pascale; Fleury-Aubusson, Anne; de Loubresse, Nicole Garreau; Geoffroy, Hélène; Vayssié, Laurence; Galvani, Angélique; Espigat, Aude; Rossier, Jean

    2002-01-01

    Centrioles and basal bodies fascinate by their spectacular architecture, featuring an arrangement of nine microtubule triplets into an axial symmetry, whose biogenesis relies on yet elusive mechanisms. However, the recent discovery of new tubulins, such as δ-, ɛ-, or η-tubulin, could constitute a breakthrough for deciphering the assembly steps of this unconventional microtubule scaffold. Here, we report the functional analysis in vivo of ɛ-tubulin, based on gene silencing in Paramecium, which demonstrates that this protein, which localizes at the basal bodies, is essential for the assembly and anchorage of the centriolar microtubules. PMID:12356863

  5. Triazolopyridinyl-acrylonitrile derivatives as antimicrotubule agents: Synthesis, in vitro and in silico characterization of antiproliferative activity, inhibition of tubulin polymerization and binding thermodynamics.

    Science.gov (United States)

    Briguglio, Irene; Laurini, Erik; Pirisi, Maria Antonietta; Piras, Sandra; Corona, Paola; Fermeglia, Maurizio; Pricl, Sabrina; Carta, Antonio

    2017-12-01

    In this paper we report the synthesis, in vitro anticancer activity, and the experimental/computational characterization of mechanism of action of a new series of E isomers of triazolo[4,5-b/c]pyridin-acrylonitrile derivatives (6c-g, 7d-e, 8d-e, 9c-f, 10d-e, 11d-e). All new compounds are endowed with moderate to interesting antiproliferative activity against 9 different cancer cell lines derived from solid and hematological human tumors. Fluorescence-based assays prove that these molecules interfere with tubulin polymerization. Furthermore, isothermal titration calorimetry (ITC) provides full tubulin/compound binding thermodynamics, thereby ultimately qualifying and quantifying the interactions of these molecular series with the target protein. Lastly, the analysis based on the tight coupling of in vitro and in silico modeling of the interactions between tubulin and the title compounds allows to propose a molecular rationale for their biological activity. Copyright © 2017 Elsevier Masson SAS. All rights reserved.

  6. The impact of multiple information on coupled awareness-epidemic dynamics in multiplex networks

    Science.gov (United States)

    Pan, Yaohui; Yan, Zhijun

    2018-02-01

    Growing interest has emerged in the study of the interplay between awareness and epidemics in multiplex networks. However, previous studies on this issue usually assume that all aware individuals take the same level of precautions, ignoring individual heterogeneity. In this paper, we investigate the coupled awareness-epidemic dynamics in multiplex networks considering individual heterogeneity. Here, the precaution levels are heterogeneous and depend on three types of information: contact information and local and global prevalence information. The results show that contact-based precautions can decrease the epidemic prevalence and augment the epidemic threshold, but prevalence-based precautions, regardless of local or global information, can only decrease the epidemic prevalence. Moreover, unlike previous studies in single-layer networks, we do not find a greater impact of local prevalence information on the epidemic prevalence compared to global prevalence information. In addition, we find that the altruistic behaviors of infected individuals can effectively suppress epidemic spreading, especially when the level of contact-based precaution is high.

  7. Coupled Landscape and Channel Dynamics in the Ganges-Brahmaputra Tidal Deltaplain, Southwest Bangladesh

    Science.gov (United States)

    Bomer, J.; Wilson, C.; Hale, R. P.

    2017-12-01

    In the Ganges-Brahmaputra Delta (GBD) and other tide-dominated systems, periodic flooding of the land surface during the tidal cycle promotes sediment accretion and surface elevation gain over time. However, over the past several decades, anthropogenic modification of the GBD tidal deltaplain through embankment construction has precluded sediment delivery to catchment areas, leading to widespread channel siltation and subsidence in poldered landscapes. Amongst the current discussion on GBD sustainability, the relationship between tidal inundation period and resultant sedimentation in natural and embanked settings remains unclear. Moreover, an evaluation of how riparian sedimentology and stratigraphic architecture changes across the GBD tidal-fluvial spectrum is notably absent, despite its critical importance in assessing geomorphic change in human-impacted transitional environments. To provide local-scale, longitudinal trends of coupled landscape-channel dynamics, an array of surface elevation tables, groundwater piezometers, and sediment traps deployed in natural and embanked settings have been monitored seasonally over a time span of 4 years. This knowledge base will be extended across the GBD tidal-fluvial transition by collecting sediment cores from carefully selected point bars along the Gorai River. Sediments will be analyzed for lithologic, biostratigraphic, and geochemical properties to provide an integrated framework for discerning depositional zones and associated facies assemblages across this complex transitional environment. Preliminary comparisons of accretion and hydroperiod data suggest that inundation duration strongly governs mass accumulation on the intertidal platform, though other factors such as mass extraction from sediment source and vegetation density may play secondary roles.

  8. PEATBOG: a biogeochemical model for analyzing coupled carbon and nitrogen dynamics in northern peatlands

    Science.gov (United States)

    Wu, Y.; Blodau, C.

    2013-08-01

    Elevated nitrogen deposition and climate change alter the vegetation communities and carbon (C) and nitrogen (N) cycling in peatlands. To address this issue we developed a new process-oriented biogeochemical model (PEATBOG) for analyzing coupled carbon and nitrogen dynamics in northern peatlands. The model consists of four submodels, which simulate: (1) daily water table depth and depth profiles of soil moisture, temperature and oxygen levels; (2) competition among three plants functional types (PFTs), production and litter production of plants; (3) decomposition of peat; and (4) production, consumption, diffusion and export of dissolved C and N species in soil water. The model is novel in the integration of the C and N cycles, the explicit spatial resolution belowground, the consistent conceptualization of movement of water and solutes, the incorporation of stoichiometric controls on elemental fluxes and a consistent conceptualization of C and N reactivity in vegetation and soil organic matter. The model was evaluated for the Mer Bleue Bog, near Ottawa, Ontario, with regards to simulation of soil moisture and temperature and the most important processes in the C and N cycles. Model sensitivity was tested for nitrogen input, precipitation, and temperature, and the choices of the most uncertain parameters were justified. A simulation of nitrogen deposition over 40 yr demonstrates the advantages of the PEATBOG model in tracking biogeochemical effects and vegetation change in the ecosystem.

  9. Ultrafast electron-lattice coupling dynamics in VO2 and V2O3 thin films

    Science.gov (United States)

    Abreu, Elsa; Gilbert Corder, Stephanie N.; Yun, Sun Jin; Wang, Siming; Ramírez, Juan Gabriel; West, Kevin; Zhang, Jingdi; Kittiwatanakul, Salinporn; Schuller, Ivan K.; Lu, Jiwei; Wolf, Stuart A.; Kim, Hyun-Tak; Liu, Mengkun; Averitt, Richard D.

    2017-09-01

    Ultrafast optical pump-optical probe and optical pump-terahertz probe spectroscopy were performed on vanadium dioxide (VO2) and vanadium sesquioxide (V2O3 ) thin films over a wide temperature range. A comparison of the experimental data from these two different techniques and two different vanadium oxides, in particular a comparison of the spectral weight oscillations generated by the photoinduced longitudinal acoustic modulation, reveals the strong electron-phonon coupling that exists in both materials. The low-energy Drude response of V2O3 appears more amenable than VO2 to ultrafast strain control. Additionally, our results provide a measurement of the temperature dependence of the sound velocity in both systems, revealing a four- to fivefold increase in VO2 and a three- to fivefold increase in V2O3 across the insulator-to-metal phase transition. Our data also confirm observations of strong damping and phonon anharmonicity in the metallic phase of VO2, and suggest that a similar phenomenon might be at play in the metallic phase of V2O3 . More generally, our simple table-top approach provides relevant and detailed information about dynamical lattice properties of vanadium oxides, paving the way to similar studies in other complex materials.

  10. Coupled longitudinal-transverse dynamics of a marine propulsion shafting under superharmonic resonances

    Science.gov (United States)

    Zou, Donglin; Rao, Zhushi; Ta, Na

    2015-06-01

    In this paper, the transverse superharmonic resonances of a marine propulsion shafting are investigated under the first blade frequency excitation. A coupled longitudinal-transverse dynamic model due to geometrical nonlinearity is established by Hamilton's principle and then is discretized by Galerkin method. The method of multiple scales is applied to these equations. The steady-state response and the stabilities are analyzed. The effect of the support stiffness, load, mass of propeller, damping ratio and slender ratio on the nonlinear effect is discussed. Research shows smaller values of slender ratio, bigger values of load and smaller values of damping ratio lead to stronger nonlinear effect. The nonlinear effect is reduced by increasing the back stern bearing stiffness and increased by increasing the front stern bearing and thrust bearing stiffness and the propeller mass. While the middle bearing makes small influence to it. It is also shown that these resonance curves are of the hardening type. Results of perturbation method are agreement with numerical simulations.

  11. Dynamics of Charge Transfer in DNA Wires: A Proton-Coupled Approach

    Science.gov (United States)

    Behnia, Sohrab; Fathizadeh, Samira; Ziaei, Javid; Akhshani, Afshin

    2017-12-01

    The advent of molecular electronics has fueled interest in studying DNA as a nanowire. The well-known Peyrard-Bishop-Dauxois (PBD) model, which was proposed for the purpose of understanding the mechanism of DNA denaturation, has a limited number of degrees of freedom. In addition, considering the Peyrard-Bishop-Holstein (PBH) model as a means of studying the charge transfer effect, in which the dynamical motion is described via the PBD model, may apply limitations on observing all the phenomena. Therefore, we have attempted to add the mutual interaction of a proton and electron in the form of proton-coupled electron transfer (PCET) to the PBH model. PCET has been implicated in a variety of oxidative processes that ultimately lead to mutations. When we have considered the PCET approach to DNA based on a proton-combined PBH model, we were able to extract the electron and proton currents independently. In this case, the reciprocal influence of electron and proton current is considered. This interaction does not affect the general form of the electronic current in DNA, but it changes the threshold of the occurrence of phenomena such as negative differential resistance. It is worth mentioning that perceiving the structural properties of the attractors in phase space via the Rényi dimension and concentrating on the critical regions through a scalogram can present a clear picture of the critical points in such phenomena.

  12. Rabi dynamics of coupled atomic and molecular Bose-Einstein condensates

    International Nuclear Information System (INIS)

    Ishkhanyan, Artur; Chernikov, G.P.; Nakamura, Hiroki

    2004-01-01

    The dynamics of coherent Rabi oscillations in coupled atomic and molecular Bose-Einstein condensates is considered taking into account the atom-atom, atom-molecule, and molecule-molecule elastic interactions. The exact solution for the molecule formation probability is derived in terms of the elliptic functions. The two-dimensional space of the involved parameters intensity and detuning is analyzed and divided into two regions where the Rabi oscillations show different characteristics. A resonance curve is found, on which the molecular formation probability monotonically increases as a function of time. The maximum value of the final transition probability on this curve is 1/2 (i.e., total transition to the molecular state) and it is achieved at high field intensities starting from a minimal threshold defined by the interspecies interaction scattering lights. The explicit form of the resonance curve is determined, and it is shown that the resonance frequency position reveals a nonlinear dependence on the Rabi frequency of the applied field. A singular point is found on the resonance curve, where a power-law time evolution of the system is observed

  13. Static and dynamic strain coupling behaviour of ferroic and multiferroic perovskites from resonant ultrasound spectroscopy

    Science.gov (United States)

    Carpenter, M. A.

    2015-07-01

    Resonant ultrasound spectroscopy (RUS) provides a window on the pervasive influence of strain coupling at phase transitions in perovskites through determination of elastic and anelastic relaxations across wide temperature intervals and with the application of external fields. In particular, large variations of elastic constants occur at structural, ferroelectric and electronic transitions and, because of the relatively long interaction length provided by strain fields in a crystal, Landau theory provides an effective formal framework for characterizing their form and magnitude. At the same time, the Debye equations provide a robust description of dynamic relaxational processes involving the mobility of defects which are coupled with strain. Improper ferroelastic transitions driven by octahedral tilting in KMnF3, LaAlO3, (Ca,Sr)TiO3, Sr(Ti,Zr)O3 and BaCeO3 are accompanied by elastic softening of tens of % and characteristic patterns of acoustic loss due to the mobility of twin walls. RUS data for ferroelectrics and ferroelectric relaxors, including BaTiO3, (K,Na)NbO3,Pb(Mg1/3Nb2/3)O3 (PMN), Pb(Sc1/2Ta1/2)O3 (PST), (Pb(Zn1/3Nb2/3)O3)0.955(PbTiO3)0.045 (PZN-PT) and (Pb(In1/2Nb1/2)O3)0.26(Pb(Mg1/3Nb2/3)O3)0.44(PbTiO3)0.30 (PIN-PMN-PT) show similar patterns of softening and attenuation but also have precursor softening associated with the development of polar nano regions. Defect-induced ferroelectricity occurs in KTaO3, without the development of long range ordering. By way of contrast, spin-lattice coupling is much more variable in strength, as reflected in a greater range of softening behaviour for Pr0.48Ca0.52MnO3 and Sm0.6Y0.4MnO3 as well as for the multiferroic perovskites EuTiO3,BiFeO3, Bi0.9Sm0.1FeO3, Bi0.9Nd0.1FeO3, (BiFeO3)0.64(CaFeO2.5)0.36, (Pb(Fe0.5Ti0.5)O3)0.4(Pb(Zr0.53Ti0.47)O3)0.6. A characteristic feature of transitions in which there is a significant Jahn-Teller component is softening as the transition point is approached from above, as illustrated by

  14. Electromagnetic dynamic response of HL-2M vacuum vessel under plasma disruption considering the electromagneto-mechanical coupling effect

    Energy Technology Data Exchange (ETDEWEB)

    Yuan, Hongwei; Yuan, Zhensheng; Li, Weixin; Pei, Cuixiang; Xie, Shejuan [State Key Laboratory for Strength and Vibration of Mechanical Structures, Shaanxi Engineering Research Center for NDT and Structural Integrity Evaluation, Xi’an Jiaotong University, Xi’an 710049 (China); Chen, Zhenmao, E-mail: chenzm@mail.xjtu.edu.cn [State Key Laboratory for Strength and Vibration of Mechanical Structures, Shaanxi Engineering Research Center for NDT and Structural Integrity Evaluation, Xi’an Jiaotong University, Xi’an 710049 (China); Pan, Yudong; Cai, Lijun; Li, Jiaxian [Southwestern Institute of Physics, Chengdu 610041 (China)

    2016-11-01

    Highlights: • A 1/5 numerical model is established and validated for HL-2M vacuum vessel. • The Lagrangian approach used for treating the EM-mechanical coupling problem is introduced. • The EM field and structural dynamic response of HL-2M VV during plasma disruptions are simulated by using the Lagrangian strategy. • The dynamic responses of the VV of HL-2M are compared to clarify the effect of the EM-mechanical coupling under the MD and VED conditions. • The results present a basis for the safe operation of the HL-2M VV device. - Abstract: During plasma disruptions (PDs), transient eddy currents are induced in the HL-2M vacuum vessel (VV) which is a D-shaped, double thin-wall structure. Under the circumstance of high magnetic field, the resulting electromagnetic (EM) forces during PDs are large and the dynamic response of related structures may be violent. In this complicated EM circumstance, the EM-mechanical coupling effect may also have a great influence on the dynamic response of VV structure. In this paper, the EM field and structural dynamic response of HL-2M VV during PDs are simulated by adopting a numerical code of the Lagrangian approach. The Lagrangian approach is on the basis of the Maxwell equations in the Lagrangian description, which treats the coupling behavior of magnetic damping effect without explicitly using the velocity term. This approach can be easily applied to actual structures by updating FEM meshes and reforming coefficient matrices before calculating EM field at each time step. In this work, the disruption plasma currents of operating conditions are simulated by using the DINA code and then the dynamic responses of displacements and stresses of the VV of HL-2M are obtained for both cases with and without considering the coupling effect. The numerical results show that stresses under the disruptions (MD and VDE) are not significant and the coupling effect does not significantly affect the peak dynamic response for the HL-2M

  15. Dynamics of coupled electron-nuclei-systems in laser fields; Dynamik gekoppelter Elektronen-Kern-Systeme in Laserfeldern

    Energy Technology Data Exchange (ETDEWEB)

    Falge, Mirjam

    2012-07-01

    This work aimed at the theoretical analysis of high harmonic generation in molecules and the influence of coupled electron and nuclear dynamics on ultra-short pulse ionization processes. In the first part of this thesis, the isotope effect and influence of vibrational excitation on high harmonic generation were investigated for the isotope pairs H{sub 2}O/D{sub 2}O and H{sub 2}/D{sub 2}. It was shown that on the one hand high harmonic intensities strongly depend on the vibrational quantum number of the initial state of the water molecule and on the other hand the spectra of H{sub 2}O and D{sub 2}O exhibit a clear isotope effect for certain vibrationally excited states. Also it was shown that high harmonics of vibrationally excited states show an even more pronounced isotope effect than the ground state. The second and third part of this work treats the influence of coupled electron and nuclear dynamics on photoelectron spectra. In order to facilitate a numerically exact description of this dynamics, a simple one-dimensional model system (Shin-Metiu model) was used. It consists of only a single electronic and nuclear degree-of-freedom and allows for a switching between adiabatic and strongly non-adiabatic dynamics by its parameterization. This model served for the analysis of the dynamics of three different cases ranging from weak over intermediate to strong electron-nuclear coupling. To investigate the influence of non-adiabatic effects on photoelectron spectra, time-resolved photoelectron spectra were calculated applying two methods: a numerically exact treatment and an adiabatic approach neglecting the electron-nuclear coupling. Subsequently, the dependence of the efficiency of a non-adiabatic transition on the nuclear mass was analysed. To this end, the population dynamics and photoelectron spectra were calculated numerically exactly for a strong electron and nuclear coupling. Thereafter the asymmetry in forward and backward direction of time

  16. Dynamical dispersion engineering in coupled vertical cavities employing a high-contrast grating

    DEFF Research Database (Denmark)

    Taghizadeh, Alireza; Chung, Il-Sug

    2017-01-01

    strength. This can be implemented by employing a high-contrast grating (HCG) as the coupling reflector in a system of two coupled vertical cavities, and engineering both the HCG reflection phase and amplitude response. Several examples of HCG-based coupled cavities with novel features are discussed...

  17. Studies of the role of tubulin beta II isotype in regulation of mitochondrial respiration in intracellular energetic units in cardiac cells.

    Science.gov (United States)

    Gonzalez-Granillo, Marcela; Grichine, Alexei; Guzun, Rita; Usson, Yves; Tepp, Kersti; Chekulayev, Vladimir; Shevchuk, Igor; Karu-Varikmaa, Minna; Kuznetsov, Andrey V; Grimm, Michael; Saks, Valdur; Kaambre, Tuuli

    2012-02-01

    The aim of this study was to investigate the possible role of tubulin βII, a cytoskeletal protein, in regulation of mitochondrial oxidative phosphorylation and energy fluxes in heart cells. This isotype of tubulin is closely associated with mitochondria and co-expressed with mitochondrial creatine kinase (MtCK). It can be rapidly removed by mild proteolytic treatment of permeabilized cardiomyocytes in the absence of stimulatory effect of cytochrome c, that demonstrating the intactness of the outer mitochondrial membrane. Contrary to isolated mitochondria, in permeabilized cardiomyocytes (in situ mitochondria) the addition of pyruvate kinase (PK) and phosphoenolpyruvate (PEP) in the presence of creatine had no effect on the rate of respiration controlled by activated MtCK, showing limited permeability of voltage-dependent anion channel (VDAC) in mitochondrial outer membrane (MOM) for ADP regenerated by MtCK. Under normal conditions, this effect can be considered as one of the most sensitive tests of the intactness of cardiomyocytes and controlled permeability of MOM for adenine nucleotides. However, proteolytic treatment of permeabilized cardiomyocytes with trypsin, by removing mitochondrial βII tubulin, induces high sensitivity of MtCK-regulated respiration to PK-PEP, significantly changes its kinetics and the affinity to exogenous ADP. MtCK coupled to ATP synthasome and to VDAC controlled by tubulin βII provides functional compartmentation of ATP in mitochondria and energy channeling into cytoplasm via phosphotransfer network. Therefore, direct transfer of mitochondrially produced ATP to sites of its utilization is largely avoided under physiological conditions, but may occur in pathology when mitochondria are damaged. This article is part of a Special Issue entitled ''Local Signaling in Myocytes''. Copyright © 2011 Elsevier Ltd. All rights reserved.

  18. Deconvolution of Buparlisib's mechanism of action defines specific PI3K and tubulin inhibitors for therapeutic intervention.

    Science.gov (United States)

    Bohnacker, Thomas; Prota, Andrea E; Beaufils, Florent; Burke, John E; Melone, Anna; Inglis, Alison J; Rageot, Denise; Sele, Alexander M; Cmiljanovic, Vladimir; Cmiljanovic, Natasa; Bargsten, Katja; Aher, Amol; Akhmanova, Anna; Díaz, J Fernando; Fabbro, Doriano; Zvelebil, Marketa; Williams, Roger L; Steinmetz, Michel O; Wymann, Matthias P

    2017-03-09

    BKM120 (Buparlisib) is one of the most advanced phosphoinositide 3-kinase (PI3K) inhibitors for the treatment of cancer, but it interferes as an off-target effect with microtubule polymerization. Here, we developed two chemical derivatives that differ from BKM120 by only one atom. We show that these minute changes separate the dual activity of BKM120 into discrete PI3K and tubulin inhibitors. Analysis of the compounds cellular growth arrest phenotypes and microtubule dynamics suggest that the antiproliferative activity of BKM120 is mainly due to microtubule-dependent cytotoxicity rather than through inhibition of PI3K. Crystal structures of BKM120 and derivatives in complex with tubulin and PI3K provide insights into the selective mode of action of this class of drugs. Our results raise concerns over BKM120's generally accepted mode of action, and provide a unique mechanistic basis for next-generation PI3K inhibitors with improved safety profiles and flexibility for use in combination therapies.

  19. What’s a (childless) man without a woman? The differential importance of couple dynamics for the well-being of childless men and women

    NARCIS (Netherlands)

    Keizer, R.; Ivanova, K.; Kreyenfeld, M.; Konietzka, D.

    2017-01-01

    Using rich couple data from the Netherlands Kinship Panel Study, we investigated to what extent there were gender differences in couple dynamics within childless couples (N = 163). Though the childless partners reported similar relationship satisfaction, we found gender differences in the link

  20. Influence of slab length on dynamic characteristics of subway train-steel spring floating slab track-tunnel coupled system

    Directory of Open Access Journals (Sweden)

    Qing-yuan Xu

    Full Text Available A subway train-steel spring floating slab track-tunnel coupling dynamic model, considering short and middle-long wavelength random track irregularities, and longitudinal connection between adjacent slabs of steel spring floating slab track, was developed. And the influence of slab length on dynamic characteristics of the system under different track conditions and train speeds are theoretically studied. The calculated results show: (1 In general, the acceleration of each component of the coupled system decreases with the increase of slab length under the perfectly smooth track condition; (2 Slab length has different influence laws on acceleration of each component of subway train-steel spring floating slab track-tunnel coupled system under random irregularity of track condition. The lower the dominant frequency distribution of vibration acceleration is, the higher influence slab length has; (3 With the increase of slab length, the force of rail, fastener and steel spring also decreases significantly, which helps to lengthen the service life of these components; (4 With the increase of slab length, the longitudinal bending moment of slab increases sharply at first, then it begins to drop slightly. When slab length exceeds the distance between two bogies of a vehicle, the longitudinal bending moment of slab changes little; (5 Slab length has significant influence on the dynamic force and displacement of the coupled system when train speed is higher.

  1. Dynamic Analysis of the High Speed Train and Slab Track Nonlinear Coupling System with the Cross Iteration Algorithm

    Directory of Open Access Journals (Sweden)

    Xiaoyan Lei

    2016-01-01

    Full Text Available A model for dynamic analysis of the vehicle-track nonlinear coupling system is established by the finite element method. The whole system is divided into two subsystems: the vehicle subsystem and the track subsystem. Coupling of the two subsystems is achieved by equilibrium conditions for wheel-to-rail nonlinear contact forces and geometrical compatibility conditions. To solve the nonlinear dynamics equations for the vehicle-track coupling system, a cross iteration algorithm and a relaxation technique are presented. Examples of vibration analysis of the vehicle and slab track coupling system induced by China’s high speed train CRH3 are given. In the computation, the influences of linear and nonlinear wheel-to-rail contact models and different train speeds are considered. It is found that the cross iteration algorithm and the relaxation technique have the following advantages: simple programming; fast convergence; shorter computation time; and greater accuracy. The analyzed dynamic responses for the vehicle and the track with the wheel-to-rail linear contact model are greater than those with the wheel-to-rail nonlinear contact model, where the increasing range of the displacement and the acceleration is about 10%, and the increasing range of the wheel-to-rail contact force is less than 5%.

  2. 'I told her this is your life': relationship dynamics, partner support and adherence to antiretroviral therapy among South African couples.

    Science.gov (United States)

    Conroy, Amy; Leddy, Anna; Johnson, Mallory; Ngubane, Thulani; van Rooyen, Heidi; Darbes, Lynae

    2017-11-01

    Despite the important role of social relationships for health and wellbeing, little is known about how primary partners affect adherence to HIV care and treatment. We qualitatively explored how relationship dynamics and partner support influence adherence among couples from KwaZulu-Natal, South Africa. Twenty-four heterosexual couples with at least one HIV-positive partner completed semi-structured interviews on topics including relationship dynamics (intimacy or emotional closeness, communication, violence), experiences with HIV care and treatment and HIV-related social support. The majority of couples were seroconcordant HIV-positive (92%) and both on antiretroviral therapy (ART) (63%). Participants described how primary partners both interfered with and supported adherence. Negative forms of influence included relationship conflict, which resulted in forgetfulness to take pills, and men's attempt to control use of ART. However, participants were more likely to highlight positive forms of influence on adherence, which included social support (instrumental, informational and emotional), intimacy and commitment. The findings also suggest a reciprocal relationship between ART and relationships such that couple ART use may enhance relationship quality. Primary partners are important pillars of support for ART adherence, especially in contexts of high unemployment and poverty. Future interventions that encourage and leverage these supportive relationships could improve ART adherence among heterosexual couples in similar settings.

  3. Geometric phase effects in low-energy dynamics near conical intersections: A study of the multidimensional linear vibronic coupling model

    International Nuclear Information System (INIS)

    Joubert-Doriol, Loïc; Ryabinkin, Ilya G.; Izmaylov, Artur F.

    2013-01-01

    In molecular systems containing conical intersections (CIs), a nontrivial geometric phase (GP) appears in the nuclear and electronic wave functions in the adiabatic representation. We study GP effects in nuclear dynamics of an N-dimensional linear vibronic coupling (LVC) model. The main impact of GP on low-energy nuclear dynamics is reduction of population transfer between the local minima of the LVC lower energy surface. For the LVC model, we proposed an isometric coordinate transformation that confines non-adiabatic effects within a two-dimensional subsystem interacting with an N − 2 dimensional environment. Since environmental modes do not couple electronic states, all GP effects originate from nuclear dynamics within the subsystem. We explored when the GP affects nuclear dynamics of the isolated subsystem, and how the subsystem-environment interaction can interfere with GP effects. Comparing quantum dynamics with and without GP allowed us to devise simple rules to determine significance of the GP for nuclear dynamics in this model

  4. Hydrodynamic Instability and Thermal Coupling in a Dynamic Model of Liquid-Propellant Combustion

    Science.gov (United States)

    Margolis, S. B.

    1999-01-01

    For liquid-propellant combustion, the Landau/Levich hydrodynamic models have been combined and extended to account for a dynamic dependence of the burning rate on the local pressure and temperature fields. Analysis of these extended models is greatly facilitated by exploiting the realistic smallness of the gas-to-liquid density ratio rho. Neglecting thermal coupling effects, an asymptotic expression was then derived for the cellular stability boundary A(sub p)(k) where A(sub p) is the pressure sensitivity of the burning rate and k is the disturbance wavenumber. The results explicitly indicate the stabilizing effects of gravity on long-wave disturbances, and those of viscosity and surface tension on short-wave perturbations, and the instability associated with intermediate wavenumbers for critical negative values of A(sub p). In the limit of weak gravity, hydrodynamic instability in liquid-propellant combustion becomes a long-wave, instability phenomenon, whereas at normal gravity, this instability is first manifested through O(1) wavenumbers. In addition, surface tension and viscosity (both liquid and gas) each produce comparable effects in the large-wavenumber regime, thereby providing important modifications to the previous analyses in which one or more of these effects was neglected. For A(sub p)= O, the Landau/Levich results are recovered in appropriate limiting cases, although this typically corresponds to a hydrodynamically unstable parameter regime for p temperature sensitivity is incorporated into our previous asymptotic analyses. This entails a coupling of the energy equation to the previous purely hydrodynamic problem, and leads to a significant modification of the pulsating boundary such that, for sufficiently large values of the temperature-sensitivity parameter, liquid-propellant combustion can become intrinsically unstable to this alternative form of hydrodynamic instability. For simplicity, further attention is confined here to the inviscid version

  5. Impacts of dynamical ocean coupling in MJO experiments using NICAM/NICOCO

    Science.gov (United States)

    Miyakawa, T.

    2016-12-01

    The cloud-system resolving atmosphereic model NICAM has been successfull in producing Madden-Julian Oscillations(MJOs), having it's prediction skill estimated to be about 4 weeks in a series of hindcast experiments for winter MJO events during 2003-2012 (Miyakawa et al. 2014). A simple mixed-layer ocean model has been applied with nudging towards a prescribed "persistent anomaly SST", which maintains the initial anomaly with a time-varying climatological seasonal cycle. This setup enables the model to interact with an ocean with reasonably realistic SST, and also run in a "forecast mode", without using any observational information after the initial date. A limitation is that under this setup, the model skill drops if the oceanic anomaly rapidly changes after the initial date in the real world. Here we run a recently developed, full 3D-ocean coupled version NICAM-COCO (NICOCO) and explore its impact on MJO simulations. Dynamical ocean models can produce oceanic waves/currents, but will also have a bias and drift away from reality. In a sub-seasonal simulation (an initial problem), it is essential to compare the merit of having better represented oceanic signals and the demerit of bias/drift. A test case simulation series featuring an MJO that triggered the abrupt termination of a major El Nino in 1998 shows that the abrupt termination occurs in all 9 simulation members, highlighting the merit of ocean coupling. However, this is a case where oceanic signals are at its extremes. We carried out an estimation of MJO prediction skill for a preliminary 1-degree mesh ocean version of NICOCO in a similar manner to Miyakawa et al. (2014). The MJO skill was degraded for simulations that was initialized at RMM phases 1 and 2 (corresponding to the Indian Ocean), while those initialized at phase 8 (Africa) was not strongly affected. The tendency of the model ocean to overestimate the Maritime Continent warm pool SST possibly delays the eastward propagation of MJO convective

  6. Tubulin inhibitors targeting the colchicine binding site: a perspective of privileged structures.

    Science.gov (United States)

    Li, Wenlong; Sun, Honghao; Xu, Shengtao; Zhu, Zheying; Xu, Jinyi

    2017-10-01

    The vital roles of microtubule in mitosis and cell division make it an attractive target for antitumor therapy. Colchicine binding site of tubulin is one of the most important pockets that have been focused on to design tubulin-destabilizing agents. Over the past few years, a large number of colchicine binding site inhibitors (CBSIs) have been developed inspired by natural products or synthetic origins, and many moieties frequently used in these CBSIs are structurally in common. In this review, we will classify the CBSIs into classical CBSIs and nonclassical CBSIs according to their spatial conformations and binding modes with tubulin, and highlight the privileged structures from these CBSIs in the development of tubulin inhibitors targeting the colchicine binding site.

  7. Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin

    Directory of Open Access Journals (Sweden)

    Ashwani Sharma

    2017-06-01

    Full Text Available Quinolin-6-yloxyacetamides (QAs are a chemical class of tubulin polymerization inhibitors that were initially identified as fungicides. Here, we report that QAs are potent anti-proliferative agents against human cancer cells including ones that are drug-resistant. QAs act by disrupting the microtubule cytoskeleton and by causing severe mitotic defects. We further demonstrate that QAs inhibit tubulin polymerization in vitro. The high resolution crystal structure of the tubulin-QA complex revealed that QAs bind to the colchicine site on tubulin, which is targeted by microtubule-destabilizing agents such as colchicine and nocodazole. Together, our data establish QAs as colchicine-site ligands and explain the molecular mechanism of microtubule destabilization by this class of compounds. They further extend our structural knowledge on antitubulin agents and thus should aid in the development of new strategies for the rational design of ligands against multidrug-resistant cancer cells.

  8. Kinetic analysis of tubulin assembly in the presence of the microtubule-associated protein TOGp

    OpenAIRE

    Bonfils, Claude; Bec, Nicole; Lacroix, Benjamin; Harricane, Marie-Cécile; Larroque, Christian

    2006-01-01

    International audience; The microtubule-associated protein TOGp, which belongs to a widely distributed protein family from yeasts to humans, is highly expressed in human tumors and brain tissue. From purified components we have determined the effect of TOGp on thermally induced tubulin association in vitro in the presence of 1 mm GTP and 3.4 m glycerol. Physicochemical parameters describing the mechanism of tubulin polymerization were deduced from the kinetic curves by application of the clas...

  9. Role of delta-tubulin and the C-tubule in assembly of Paramecium basal bodies

    Directory of Open Access Journals (Sweden)

    Beisson Janine

    2001-03-01

    Full Text Available Abstract Background A breakthrough in the understanding of centriole assembly was provided by the characterization of the UNI3 gene in Chlamydomonas. Deletion of this gene, found to encode a novel member of the tubulin superfamily, delta-tubulin, results in the loss of the C-tubule, in the nine microtubule triplets which are the hallmark of centrioles and basal bodies. Delta-tubulin homologs have been identified in the genomes of mammals and protozoa, but their phylogenetic relationships are unclear and their function is not yet known. Results Using the method of gene-specific silencing, we have inactivated the Paramecium delta-tubulin gene, which was recently identified. This inactivation leads to loss of the C-tubule in all basal bodies, without any effect on ciliogenesis. This deficiency does not directly affect basal body duplication, but perturbs the cortical cytoskeleton, progressively leading to mislocalization and loss of basal bodies and to altered cell size and shape. Furthermore, additional loss of B- and even A-tubules at one or more triplet sites are observed: around these incomplete cylinders, the remaining doublets are nevertheless positioned according to the native ninefold symmetry. Conclusions The fact that in two distinct phyla, delta-tubulin plays a similar role provides a new basis for interpreting phylogenetic relationships among delta-tubulins. The role of delta-tubulin in C-tubule assembly reveals that tubulins contribute subtle specificities at microtubule nucleation sites. Our observations also demonstrate the existence of a prepattern for the ninefold symmetry of the organelle which is maintained even if less than 9 triplets develop.

  10. Polyglutamylation of atlantic cod tubulin: immunochemical localization and possible role in pigment granule transport.

    Science.gov (United States)

    Klotz, A; Rutberg, M; Denoulet, P; Wallin, M

    1999-12-01

    In higher organisms, there is a large variety of tubulin isoforms, due to multiple tubulin genes and extensive post-translational modification. The properties of microtubules may be modulated by their tubulin isoform composition. Polyglutamylation is a post-translational modification that is thought to influence binding of both structural microtubule associated proteins (MAPs) and mechano-chemical motors to tubulin. The present study investigates the role of tubulin polyglutamylation in a vesicle transporting system, cod (Gadus morhua) melanophores. We did this by microinjecting an antibody against polyglutamylated tubulin into these cells. To put our results into perspective, and to be able to judge their universal application, we characterized cod tubulin polyglutamylation by Western blotting technique, and compared it to what is known from mammals. We found high levels of polyglutamylation in tissues and cell types whose functions are highly dependent on interactions between microtubules and motor proteins. Microinjection of the anti-polyglutamylation antibody GT335 into cultured melanophores interfered with pigment granule dispersion, while dynein-dependent aggregation was unaffected. Additional experiments showed that GT335-injected cells were able to aggregate pigment even when actin filaments were depolymerized, indicating that the maintained ability of pigment aggregation in these cells was indeed microtubule-based and did not depend upon actin filaments. The results indicate that dynein and the kinesin-like dispersing motor protein in cod melanophores bind to tubulin on slightly different sites, and perhaps depend differentially on polyglutamylation for their interaction with microtubules. The binding site of the dispersing motor may bind directly to the polyglutamate chain, or more closely than dynein. Copyright 1999 Wiley-Liss, Inc.

  11. Coupled dynamics of the South China Sea, the Sulu Sea, and the Pacific Ocean

    Science.gov (United States)

    Metzger, E. Joseph; Hurlburt, Harley E.

    1996-05-01

    The complex geometry, the seasonally reversing monsoon winds, and the connectivity with the Pacific Ocean all contribute to the coupled dynamics of the circulation in the South China Sea (SCS), the Sulu Sea, and the region around the Philippine Islands. The 1/2°, 1.5-layer global reduced gravity thermodynamic Navy layered ocean model (NLOM) is used to separate these components and to investigate the role of each one. When forced by the Hellerman and Rosenstein [1983] (HR) monthly wind stress climatology, the basic features of the model solution compare well with observations, and with higher-resolution NLOM versions. The dynamics of the flow from the Pacific Ocean into the SCS via the Luzon Strait are emphasized. The effects of Ekman suction/pumping due to wind curl are examined by forming monthly spatial averages of the winds over the SCS/Sulu Sea basins. This maintains a monthly varying stress but with a region of zero curl. Forcing the model with these modified winds leaves the mean Luzon Strait transport unchanged, and the variability actually increases slightly. These results suggest that it is the pressure head created by the pileup of water from the monsoonal wind stress that controls the variability of the Luzon Strait transport. The forcing for wind stress pileup effects could be either internal or external to the SCS/Sulu Sea basin. The effects of internal forcing are studied by applying monthly winds within this basin but annual HR winds outside the region. With this forcing the mean Luzon Strait transport is essentially unchanged, but the variability is only 44% of the standard case value. The external forcing is defined as zero stress in the SCS/Sulu Sea basins and HR monthly winds outside. Again, the mean Luzon Strait transport is unchanged, and here the variability is 60% of the standard case. The mean Luzon Strait transport is largely a function of the model geometry. When the Sulu archipelago is opened, a net cyclonic flow develops around the

  12. Development of a general coupling interface for the fuel performance code TRANSURANUS – Tested with the reactor dynamics code DYN3D

    International Nuclear Information System (INIS)

    Holt, L.; Rohde, U.; Seidl, M.; Schubert, A.; Van Uffelen, P.; Macián-Juan, R.

    2015-01-01

    Highlights: • A general coupling interface was developed for couplings of the TRANSURANUS code. • With this new tool simplified fuel behavior models in codes can be replaced. • Applicable e.g. for several reactor types and from normal operation up to DBA. • The general coupling interface was applied to the reactor dynamics code DYN3D. • The new coupled code system DYN3D–TRANSURANUS was successfully tested for RIA. - Abstract: A general interface is presented for coupling the TRANSURANUS fuel performance code with thermal hydraulics system, sub-channel thermal hydraulics, computational fluid dynamics (CFD) or reactor dynamics codes. As first application the reactor dynamics code DYN3D was coupled at assembly level in order to describe the fuel behavior in more detail. In the coupling, DYN3D provides process time, time-dependent rod power and thermal hydraulics conditions to TRANSURANUS, which in case of the two-way coupling approach transfers parameters like fuel temperature and cladding temperature back to DYN3D. Results of the coupled code system are presented for the reactivity transient scenario, initiated by control rod ejection. More precisely, the two-way coupling approach systematically calculates higher maximum values for the node fuel enthalpy. These differences can be explained thanks to the greater detail in fuel behavior modeling. The numerical performance for DYN3D–TRANSURANUS was proved to be fast and stable. The coupled code system can therefore improve the assessment of safety criteria, at a reasonable computational cost

  13. Rigid-flexible coupling dynamic modeling and investigation of a redundantly actuated parallel manipulator with multiple actuation modes

    Science.gov (United States)

    Liang, Dong; Song, Yimin; Sun, Tao; Jin, Xueying

    2017-09-01

    A systematic dynamic modeling methodology is presented to develop the rigid-flexible coupling dynamic model (RFDM) of an emerging flexible parallel manipulator with multiple actuation modes. By virtue of assumed mode method, the general dynamic model of an arbitrary flexible body with any number of lumped parameters is derived in an explicit closed form, which possesses the modular characteristic. Then the completely dynamic model of system is formulated based on the flexible multi-body dynamics (FMD) theory and the augmented Lagrangian multipliers method. An approach of combining the Udwadia-Kalaba formulation with the hybrid TR-BDF2 numerical algorithm is proposed to address the nonlinear RFDM. Two simulation cases are performed to investigate the dynamic performance of the manipulator with different actuation modes. The results indicate that the redundant actuation modes can effectively attenuate vibration and guarantee higher dynamic performance compared to the traditional non-redundant actuation modes. Finally, a virtual prototype model is developed to demonstrate the validity of the presented RFDM. The systematic methodology proposed in this study can be conveniently extended for the dynamic modeling and controller design of other planar flexible parallel manipulators, especially the emerging ones with multiple actuation modes.

  14. Biological signatures of dynamic river networks from a coupled landscape evolution and neutral community model

    Science.gov (United States)

    Stokes, M.; Perron, J. T.

    2017-12-01

    Freshwater systems host exceptionally species-rich communities whose spatial structure is dictated by the topology of the river networks they inhabit. Over geologic time, river networks are dynamic; drainage basins shrink and grow, and river capture establishes new connections between previously separated regions. It has been hypothesized that these changes in river network structure influence the evolution of life by exchanging and isolating species, perhaps boosting biodiversity in the process. However, no general model exists to predict the evolutionary consequences of landscape change. We couple a neutral community model of freshwater organisms to a landscape evolution model in which the river network undergoes drainage divide migration and repeated river capture. Neutral community models are macro-ecological models that include stochastic speciation and dispersal to produce realistic patterns of biodiversity. We explore the consequences of three modes of speciation - point mutation, time-protracted, and vicariant (geographic) speciation - by tracking patterns of diversity in time and comparing the final result to an equilibrium solution of the neutral model on the final landscape. Under point mutation, a simple model of stochastic and instantaneous speciation, the results are identical to the equilibrium solution and indicate the dominance of the species-area relationship in forming patterns of diversity. The number of species in a basin is proportional to its area, and regional species richness reaches its maximum when drainage area is evenly distributed among sub-basins. Time-protracted speciation is also modeled as a stochastic process, but in order to produce more realistic rates of diversification, speciation is not assumed to be instantaneous. Rather, each new species must persist for a certain amount of time before it is considered to be established. When vicariance (geographic speciation) is included, there is a transient signature of increased

  15. Current-driven spin dynamics in spin-orbit coupled superconductors

    Science.gov (United States)

    Vignale, Giovanni

    2012-02-01

    The study of the interplay between spin-orbit coupling (SOC) and superconductivity in two-dimensional electron gases (2DEG) has recently gained impetus following the discovery of i) 2DEGs in InAs or GaAs semiconductor heterostructures that are proximized by ordinary s-wave superconducting leads -- a class of systems which plays a key role in the quest for Majorana fermions -- and ii) 2DEGs that form at interfaces between complex oxides such as LaAlO3 and SrTiO3, which display tunable SOC and, under appropriate conditions, superconductivity. Motivated by this body of experimental and theoretical literature, we investigate the collective spin dynamics of an archetypical 2DEG model Hamiltonian with Rashba SOC in the presence of repulsive electron-electron (e-e) interactions. In the absence of superconductivity a Rashba 2DEG exhibits spin oscillations, which, at long wavelength and for weak repulsive interactions, have a frequency 2 αkF, α being the strength of SOC and kF the usual 2D Fermi wavenumber in the absence of SOC. These oscillations, however, are damped and quickly decay due to the emission of (double) electron-hole pairs, which, in the normal phase, are present at arbitrary low energies. In the presence of superconductivity, collective spin oscillations continue to exist in a wide range of parameters, because the Cooper pairs are mixtures of singlet and triplet components. Further, these excitations are undamped because they lie inside the superconducting gap where no other excitation exists. These spin oscillations can be excited by the application of a magnetic field or a supercurrent and can be used to realize persistent spin oscillators operating in the frequency range of 10 GHz - 1 THz.[4pt] Work supported by EU FP7 Programme Grant No. 215368-SEMISPINNET, No. 234970- NANOCTM and No. 248629-SOLID, and by NSF DMR-0705460.

  16. Specific alpha- and beta-tubulin isotypes optimize the functions of sensory Cilia in Caenorhabditis elegans.

    Science.gov (United States)

    Hurd, Daryl D; Miller, Renee M; Núñez, Lizbeth; Portman, Douglas S

    2010-07-01

    Primary cilia have essential roles in transducing signals in eukaryotes. At their core is the ciliary axoneme, a microtubule-based structure that defines cilium morphology and provides a substrate for intraflagellar transport. However, the extent to which axonemal microtubules are specialized for sensory cilium function is unknown. In the nematode Caenorhabditis elegans, primary cilia are present at the dendritic ends of most sensory neurons, where they provide a specialized environment for the transduction of particular stimuli. Here, we find that three tubulin isotypes--the alpha-tubulins TBA-6 and TBA-9 and the beta-tubulin TBB-4--are specifically expressed in overlapping sets of C. elegans sensory neurons and localize to the sensory cilia of these cells. Although cilia still form in mutants lacking tba-6, tba-9, and tbb-4, ciliary function is often compromised: these mutants exhibit a variety of sensory deficits as well as the mislocalization of signaling components. In at least one case, that of the CEM cephalic sensory neurons, cilium architecture is disrupted in mutants lacking specific ciliary tubulins. While there is likely to be some functional redundancy among C. elegans tubulin genes, our results indicate that specific tubulins optimize the functional properties of C. elegans sensory cilia.

  17. Prefrontal Engagement and Reduced Default Network Suppression Co-occur and Are Dynamically Coupled in Older Adults: The Default-Executive Coupling Hypothesis of Aging.

    Science.gov (United States)

    Turner, Gary R; Spreng, R Nathan

    2015-12-01

    Reduced executive control is a hallmark of neurocognitive aging. Poor modulation of lateral pFC activity in the context of increasing task challenge in old adults and a "failure to deactivate" the default network during cognitive control tasks have been observed. Whether these two patterns represent discrete mechanisms of neurocognitive aging or interact into older adulthood remains unknown. We examined whether altered pFC and default network dynamics co-occur during goal-directed planning over increasing levels of difficulty during performance on the Tower of London task. We used fMRI to investigate task- and age-related changes in brain activation and functional connectivity across four levels of task challenge. Frontoparietal executive control regions were activated and default network regions were suppressed during planning relative to counting performance in both groups. Older adults, unlike young, failed to modulate brain activity in executive control and default regions as planning demands increased. Critically, functional connectivity analyses revealed bilateral dorsolateral pFC coupling in young adults and dorsolateral pFC to default coupling in older adults with increased planning complexity. We propose a default-executive coupling hypothesis of aging. First, this hypothesis suggests that failure to modulate control and default network activity in response to increasing task challenge are linked in older adulthood. Second, functional brain changes involve greater coupling of lateral pFC and the default network as cognitive control demands increase in older adults. We speculate that these changes reflect an adaptive shift in cognitive approach as older adults come to rely more upon stored representations to support goal-directed task performance.

  18. Multiphoton dynamics of qutrits in the ultrastrong coupling regime with a quantized photonic field

    Energy Technology Data Exchange (ETDEWEB)

    Avetissian, H. K., E-mail: avetissian@ysu.am; Avetissian, A. K.; Mkrtchian, G. F. [Yerevan State University 0025, Center of Strong Fields Physics (Armenia); Kibis, O. V. [Novosibirsk State Technical University, Department of Applied and Theoretical Physics (Russian Federation)

    2015-12-15

    Multiphoton resonant excitation of a three-state quantum system (a qutrit) with a single-mode photonic field is considered in the ultrastrong coupling regime, when the qutrit–photonic field coupling rate is comparable to appreciable fractions of the photon frequency. For ultrastrong couplings, the obtained solutions of the Schrödinger equation that reveal multiphoton Rabi oscillations in qutrits with the interference effects leading to the collapse and revival of atomic excitation probabilities at the direct multiphoton resonant transitions.

  19. Numerical analysis of dynamic response of vehicle–bridge coupled system on long-span continuous girder bridge

    Directory of Open Access Journals (Sweden)

    Lipeng An

    2016-07-01

    Full Text Available To systematically study the vehicle–bridge coupled dynamic response and its change rule with different parameters, a vehicle model with seven degrees of freedom was built and the total potential energy of vehicle space vibration system was deduced. Considering the stimulation of road roughness, the dynamic response equation of vehicle–bridge coupled system was established in accordance with the elastic system principle of total potential energy with stationary value and the “set-in-right-position” rule. On the basis of the self-compiled Fortran program and bridge engineering, the dynamic response of long-span continuous girder bridge under vehicle load was studied. This study also included the calculation of vehicle impact coefficient, evaluation of vibration comfort, and analysis of dynamic response parameters. Results show the impact coefficient changes with lane number and is larger than the value calculated by the “general code for design of highway bridges and culverts (China”. The Dieckmann index of bridge vibration is also related to lane number, and the vibration comfort evaluation is good in normal conditions. The relevant conclusions from parametric analyses have practical significance to dynamic design and daily operation of long-span continuous girder bridges in expressways. Safety and comfort are expected to improve significantly with further control of the vibration of vehicle–bridge system.

  20. Spin and tunneling dynamics in an asymmetrical double quantum dot with spin-orbit coupling: Selective spin transport device

    Science.gov (United States)

    Singh, Madhav K.; Jha, Pradeep K.; Bhattacherjee, Aranya B.

    2017-09-01

    In this article, we study the spin and tunneling dynamics as a function of magnetic field in a one-dimensional GaAs double quantum dot with both the Dresselhaus and Rashba spin-orbit coupling. In particular, we consider different spatial widths for the spin-up and spin-down electronic states. We find that the spin dynamics is a superposition of slow as well as fast Rabi oscillations. It is found that the Rashba interaction strength as well as the external magnetic field strongly modifies the slow Rabi oscillations which is particularly useful for implementing solid state selective spin transport device.

  1. Nonlinear dynamic behaviour of a rotor-foundation system coupled through passive magnetic bearings with magnetic anisotropy - Theory and experiment

    DEFF Research Database (Denmark)

    Enemark, Søren; Santos, Ilmar F.

    2016-01-01

    In this work, the nonlinear dynamic behaviour of a vertical rigid rotor interacting with a flexible foundation by means of two passive magnetic bearings is quantified and evaluated. The quantification is based on theoretical and experimental investigation of the non-uniformity (anisotropy......-coupling between the two orthogonal directions, especially during counter-phase motion between shaft and bearings. The clear nonlinear behaviour is facilitated by the lack of damping resulting in relatively large vibrations. The overall nonlinear dynamic behaviour is well captured by the theoretical model, thereby...

  2. Mode coupling theory analysis of electrolyte solutions: Time dependent diffusion, intermediate scattering function, and ion solvation dynamics.

    Science.gov (United States)

    Roy, Susmita; Yashonath, Subramanian; Bagchi, Biman

    2015-03-28

    A self-consistent mode coupling theory (MCT) with microscopic inputs of equilibrium pair correlation functions is developed to analyze electrolyte dynamics. We apply the theory to calculate concentration dependence of (i) time dependent ion diffusion, (ii) intermediate scattering function of the constituent ions, and (iii) ion solvation dynamics in electrolyte solution. Brownian dynamics with implicit water molecules and molecular dynamics method with explicit water are used to check the theoretical predictions. The time dependence of ionic self-diffusion coefficient and the corresponding intermediate scattering function evaluated from our MCT approach show quantitative agreement with early experimental and present Brownian dynamic simulation results. With increasing concentration, the dispersion of electrolyte friction is found to occur at increasingly higher frequency, due to the faster relaxation of the ion atmosphere. The wave number dependence of intermediate scattering function, F(k, t), exhibits markedly different relaxation dynamics at different length scales. At small wave numbers, we find the emergence of a step-like relaxation, indicating the presence of both fast and slow time scales in the system. Such behavior allows an intriguing analogy with temperature dependent relaxation dynamics of supercooled liquids. We find that solvation dynamics of a tagged ion exhibits a power law decay at long times-the decay can also be fitted to a stretched exponential form. The emergence of the power law in solvation dynamics has been tested by carrying out long Brownian dynamics simulations with varying ionic concentrations. The solvation time correlation and ion-ion intermediate scattering function indeed exhibit highly interesting, non-trivial dynamical behavior at intermediate to longer times that require further experimental and theoretical studies.

  3. Optimal Control Strategy Design Based on Dynamic Programming for a Dual-Motor Coupling-Propulsion System

    Science.gov (United States)

    Zhang, Shuo; Zhang, Chengning; Han, Guangwei; Wang, Qinghui

    2014-01-01

    A dual-motor coupling-propulsion electric bus (DMCPEB) is modeled, and its optimal control strategy is studied in this paper. The necessary dynamic features of energy loss for subsystems is modeled. Dynamic programming (DP) technique is applied to find the optimal control strategy including upshift threshold, downshift threshold, and power split ratio between the main motor and auxiliary motor. Improved control rules are extracted from the DP-based control solution, forming near-optimal control strategies. Simulation results demonstrate that a significant improvement in reducing energy loss due to the dual-motor coupling-propulsion system (DMCPS) running is realized without increasing the frequency of the mode switch. PMID:25540814

  4. Interventions and Interactions: Understanding Coupled Human-Water Dynamics for Improved Water Resources Management in the Himalayas

    Science.gov (United States)

    Crootof, A.

    2017-12-01

    Understanding coupled human-water dynamics offers valuable insights to address fundamental water resources challenges posed by environmental change. With hydropower reshaping human-water interactions in mountain river basins, there is a need for a socio-hydrology framework—which examines two-way feedback loops between human and water systems—to more effectively manage water resources. This paper explores the cross-scalar interactions and feedback loops between human and water systems in river basins affected by run-of-the-river hydropower and highlights the utility of a socio-hydrology perspectives to enhance water management in the face of environmental change. In the Himalayas, the rapid expansion of run-of-the-river hydropower—which diverts streamflow for energy generation—is reconfiguring the availability, location, and timing of water resources. This technological intervention in the river basin not only alters hydrologic dyanmics but also shapes social outcomes. Using hydropower development in the highlands of Uttarakhand, India as a case study, I first illustrate how run-of-the-river projects transform human-water dynamics by reshaping the social and physical landscape of a river basin. Second, I emphasize how examining cross-scalar feedbacks among structural dynamics, social outcomes, and values and norms in this coupled human-water system can inform water management. Third, I present hydrological and social literature, raised separately, to indicate collaborative research needs and knowledge gaps for coupled human-water systems affected by run-of-the-river hydropower. The results underscore the need to understand coupled human-water dynamics to improve water resources management in the face of environmental change.

  5. Simulating the effects of crop growth on land-atmosphere interactions using a coupled mesoscale-dynamic vegetation model

    Science.gov (United States)

    Sharma, Prateek; Baidya Roy, Somnath; Kumari, Sarita; Srivastava, Ankur

    2017-04-01

    Land and atmospheric dynamics are tightly coupled. Crop growth affects local micrometeorology by influencing the exchanges of heat, moisture and momentum between the land and the atmosphere. In this study, a dynamic crop growth module is incorporated in the Weather Research Forecasting (WRF) model to explore effects of crop growth on land-atmosphere interactions during the growing season. The crop module is derived from the crop model SUCROS that simulates carbon assimilation by photosynthesis and its allocation into the roots, stem, leaves and storage organs of crops. The crop module is first run in a stand-alone mode and calibrated to match observed LAI from soybean fields in Nebraska and Illinois and spring wheat fields in northern India. Next, it is incorporated as a submodule in the Noah-MP land surface module of WRF. In this coupled form, the fluxes from the land surface are simulated by Noah-MP at every model timestep while the LAI and root depth required for flux calculations are updated daily by the dynamic crop submodule. This coupled model provides better simulations of crop phenology than the generic dynamic vegetation module in Noah-MP. Moreover, the coupled model is able to simulate feedbacks on surface air temperature and humidity associated with changing Bowen Ratio due to crop growth in contrast with prescribed-leaf area index (LAI)-driven methods that is typical in mesoscale models. We have introduced crop yield as a model output that potentially expands the capability of this model to provide seasonal-scale weather and crop yield outlooks.

  6. Nonlinear dynamics and bifurcations of a coupled oscillator model for calling behavior of Japanese tree frogs (Hyla japonica).

    Science.gov (United States)

    Aihara, Ikkyu; Tsumoto, Kunichika

    2008-01-01

    Synchronization has been observed in various systems, including living beings. In a previous study, we reported a new phenomenon with antisynchronization in calling behavior of two interacting Japanese tree frogs. In this paper, we theoretically analyse nonlinear dynamics in a system of three coupled oscillators, which models three interacting frogs, where the oscillators of each pair have the property of antisynchronization; in particular, we perform bifurcation analysis and Lyapunov function analysis.

  7. Projective synchronization in drive-response dynamical networks of partially linear systems with time-varying coupling delay

    International Nuclear Information System (INIS)

    Sun Mei; Zeng Changyan; Tian Lixin

    2008-01-01

    Recently, projective synchronization (PS) has been widely studied in more than one system. In this Letter, we propose a linear controller and an updated law to realize the PS in drive-response dynamical networks of partially linear systems with time-varying coupling delay, based on the Lyapunov stability theory. A sufficient condition is obtained. Moreover, numerical simulations are provided to verify the correctness and effectiveness of the scheme

  8. Dynamics of vector dark soliton induced by the Rabi coupling in one-dimensional trapped Bose–Einstein condensates

    International Nuclear Information System (INIS)

    Liu, Chao-Fei; Lu, Min; Liu, Wei-Qing

    2012-01-01

    The Rabi coupling between two components of Bose–Einstein condensates is used to controllably change ordinary dark soliton into dynamic vector dark soliton or ordinary vector dark soliton. When all inter- and intraspecies interactions are equal, the dynamic vector dark soliton is exactly constructed by two sub-dark-solitons, which oscillate with the same velocity and periodically convert with each other. When the interspecies interactions deviate from the intraspecies ones, the whole soliton can maintain its essential shape, but the sub-dark-soliton becomes inexact or is broken. This study indicates that the Rabi coupling can be used to obtain various vector dark solitons. -- Highlights: ► We consider the Rabi coupling to affect the dark soliton in BECs. ► We examine the changes of the initial dark solitons. ► The structure of the soliton depends on the inter- and intraspecies interactions strength. ► The Rabi coupling can be used to obtain various vector dark solitons.

  9. Investigation of coupling between chemistry and discharge dynamics in radio frequency hydrogen plasmas in the Torr regime

    International Nuclear Information System (INIS)

    Kalache, B; Novikova, T; Morral, A Fontcuberta i; Cabarrocas, P Roca i; Morscheidt, W; Hassouni, K

    2004-01-01

    We present the results of a study of a capacitively coupled hydrogen discharge by means of a one-dimensional numerical fluid model and experiments. The model includes a detailed description of the gas-phase chemistry taking into account the production of H - ions by dissociative attachment of H 2 vibrational levels. The population of these levels is described by a Boltzmann vibrational distribution function characterized by a vibrational temperature T V . The effect of the dissociative-attachment reaction on the discharge dynamics was investigated by varying the vibrational temperature, which was used as a model input parameter. Increasing the vibrational temperature from 1000 to 6000 K affects both the chemistry and the dynamics of the electrical discharge. Because of dissociative attachment, the H - ion density increases by seven orders of magnitude and the H - ion density to electron density ratio varies from 10 -7 to 6, while the positive ion density increases slightly. As a consequence, the atomic hydrogen density increases by a factor of three, and the sheath voltage drops from 95 to 75 V. Therefore, clear evidence of a strong coupling between chemistry and electrical dynamics through the production of H - ions is demonstrated. Moreover, satisfactory agreement between computed and measured values of atomic hydrogen and H - ion densities gives further support to the requirement of a detailed description of the hydrogen vibrational kinetics for capacitively coupled radio frequency discharge models in the Torr regime

  10. Dynamic Finite Element Analysis of Bending-Torsion Coupled Beams Subjected to Combined Axial Load and End Moment

    Directory of Open Access Journals (Sweden)

    Mir Tahmaseb Kashani

    2015-01-01

    Full Text Available The dynamic analysis of prestressed, bending-torsion coupled beams is revisited. The axially loaded beam is assumed to be slender, isotropic, homogeneous, and linearly elastic, exhibiting coupled flexural-torsional displacement caused by the end moment. Based on the Euler-Bernoulli bending and St. Venant torsion beam theories, the vibration and stability of such beams are explored. Using the closed-form solutions of the uncoupled portions of the governing equations as the basis functions of approximation space, the dynamic, frequency-dependent, interpolation functions are developed, which are then used in conjunction with the weighted residual method to develop the Dynamic Finite Element (DFE of the system. Having implemented the DFE in a MATLAB-based code, the resulting nonlinear eigenvalue problem is then solved to determine the coupled natural frequencies of illustrative beam examples, subjected to various boundary and load conditions. The proposed method is validated against limited available experimental and analytical data, those obtained from an in-house conventional Finite Element Method (FEM code and FEM-based commercial software (ANSYS. In comparison with FEM, the DFE exhibits higher convergence rates and in the absence of end moment it produces exact results. Buckling analysis is also carried out to determine the critical end moment and compressive force for various load combinations.

  11. Dynamical coupling of plasmons and molecular excitations by hybrid quantum/classical calculations: time-domain approach

    International Nuclear Information System (INIS)

    Sakko, Arto; Rossi, Tuomas P; Nieminen, Risto M

    2014-01-01

    The presence of plasmonic material influences the optical properties of nearby molecules in untrivial ways due to the dynamical plasmon-molecule coupling. We combine quantum and classical calculation schemes to study this phenomenon in a hybrid system that consists of a Na 2 molecule located in the gap between two Au/Ag nanoparticles. The molecule is treated quantum-mechanically with time-dependent density-functional theory, and the nanoparticles with quasistatic classical electrodynamics. The nanoparticle dimer has a plasmon resonance in the visible part of the electromagnetic spectrum, and the Na 2 molecule has an electron-hole excitation in the same energy range. Due to the dynamical interaction of the two subsystems the plasmon and the molecular excitations couple, creating a hybridized molecular-plasmon excited state. This state has unique properties that yield e.g. enhanced photoabsorption compared to the freestanding Na 2 molecule. The computational approach used enables decoupling of the mutual plasmon-molecule interaction, and our analysis verifies that it is not legitimate to neglect the backcoupling effect when describing the dynamical interaction between plasmonic material and nearby molecules. Time-resolved analysis shows nearly instantaneous formation of the coupled state, and provides an intuitive picture of the underlying physics. (paper)

  12. Dynamics and Nonlinearities of the Electro-Mechanical Coupling in Inertial MEMS

    NARCIS (Netherlands)

    Machado da Rocha, L.A.

    2005-01-01

    The study of the nonlinear dynamics of electrostatically actuated MEMS devices is essential for proper device operation and for the actual exploitation of the dynamic aspects of MEMS. Accurate static and dynamic models and nonlinear analysis provide the tools to achieve a better understanding of the

  13. Tubulin evolution in insects: gene duplication and subfunctionalization provide specialized isoforms in a functionally constrained gene family

    Directory of Open Access Journals (Sweden)

    Gadagkar Sudhindra R

    2010-04-01

    Full Text Available Abstract Background The completion of 19 insect genome sequencing projects spanning six insect orders provides the opportunity to investigate the evolution of important gene families, here tubulins. Tubulins are a family of eukaryotic structural genes that form microtubules, fundamental components of the cytoskeleton that mediate cell division, shape, motility, and intracellular trafficking. Previous in vivo studies in Drosophila find a stringent relationship between tubulin structure and function; small, biochemically similar changes in the major alpha 1 or testis-specific beta 2 tubulin protein render each unable to generate a motile spermtail axoneme. This has evolutionary implications, not a single non-synonymous substitution is found in beta 2 among 17 species of Drosophila and Hirtodrosophila flies spanning 60 Myr of evolution. This raises an important question, How do tubulins evolve while maintaining their function? To answer, we use molecular evolutionary analyses to characterize the evolution of insect tubulins. Results Sixty-six alpha tubulins and eighty-six beta tubulin gene copies were retrieved and subjected to molecular evolutionary analyses. Four ancient clades of alpha and beta tubulins are found in insects, a major isoform clade (alpha 1, beta 1 and three minor, tissue-specific clades (alpha 2-4, beta 2-4. Based on a Homarus americanus (lobster outgroup, these were generated through gene duplication events on major beta and alpha tubulin ancestors, followed by subfunctionalization in expression domain. Strong purifying selection acts on all tubulins, yet maximum pairwise amino acid distances between tubulin paralogs are large (0.464 substitutions/site beta tubulins, 0.707 alpha tubulins. Conversely orthologs, with the exception of reproductive tissue isoforms, show little sequence variation except in the last 15 carboxy terminus tail (CTT residues, which serve as sites for post-translational modifications (PTMs and interactions

  14. Dynamic investigation of mode transition in inductively coupled plasma with a hybrid model

    International Nuclear Information System (INIS)

    Zhao Shuxia; Gao Fei; Wang Younian

    2009-01-01

    Industrial inductively coupled plasma (ICP) sources are always operated in low gas pressure 10-100 mTorr, therefore in order to accurately investigate the mode transition of ICP, we developed our pure fluid model (2009 J. Appl. Phys. 105 083306) into a hybrid fluid/Monte Carlo (MC) model, where the MC part is exploited to take in more dynamic characteristics of electrons and self-consistently calculate the rate coefficients and electron temperature used in the fluid module, and more crucially to study the electron energy distribution function (EEDF) evolution with mode transition. Due to the introduction of the nonlocal property of the electrons at relatively low pressures, the dependences of the plasma density on the coil current, including the mode transitions, are distinctly different at low and high pressures when simulated by this improved hybrid model (HM), while the trends for different pressures obtained from the original pure fluid model (PFM) are the same in all cases. Furthermore, the computed peaks of the electron density profile by the HM shift from the discharge centre in the E mode to the intense inductive field heating area (about half of the radius of the reaction chamber under the dielectric window) in H mode. In addition, the electron temperature profiles of two modes under different pressures simulated by HM are totally higher than the results of PFM. When the pressure is low, there is a minimum exhibited in the bulk plasma of the electron temperature profiles of the E mode, and along with the mode transition the distribution area of low temperature is substantially reduced. Moreover, this phenomenon disappears when the gas pressure is increased. Accompanied by this, the calculated EEDF of the E mode in the low pressure also demonstrates an absolutely dominant low energy electron fraction (about ≤5 eV); while transforming to the H discharge most of the electrons carry an energy of 1-10 eV. The tendencies of the calculated EEDF evolution with

  15. Dynamics of Coupled Electron-Boson Systems with the Multiple Davydov D1Ansatz and the Generalized Coherent State.

    Science.gov (United States)

    Chen, Lipeng; Borrelli, Raffaele; Zhao, Yang

    2017-11-22

    The dynamics of a coupled electron-boson system is investigated by employing a multitude of the Davydov D 1 trial states, also known as the multi-D 1 Ansatz, and a second trial state based on a superposition of the time-dependent generalized coherent state (GCS Ansatz). The two Ansätze are applied to study population dynamics in the spin-boson model and the Holstein molecular crystal model, and a detailed comparison with numerically exact results obtained by the (multilayer) multiconfiguration time-dependent Hartree method and the hierarchy equations of motion approach is drawn. It is found that the two methodologies proposed here have significantly improved over that with the single D 1 Ansatz, yielding quantitatively accurate results even in the critical cases of large energy biases and large transfer integrals. The two methodologies provide new effective tools for accurate, efficient simulation of many-body quantum dynamics thanks to a relatively small number of parameters which characterize the electron-nuclear wave functions. The wave-function-based approaches are capable of tracking explicitly detailed bosonic dynamics, which is absent by construct in approaches based on the reduced density matrix. The efficiency and flexibility of our methods are also advantages as compared with numerically exact approaches such as QUAPI and HEOM, especially at low temperatures and in the strong coupling regime.

  16. Dynamic Characteristics Study with Multidegree-of-Freedom Coupling in TBM Cutterhead System Based on Complex Factors

    Directory of Open Access Journals (Sweden)

    Wei Sun

    2013-01-01

    Full Text Available A multidegree-of-freedom coupling dynamic model, which contains a joint cutterhead, an inner ring gear, a support shield body, and pinions, is established, considering the external stochastic excitations, time-varying meshing stiffness, transmission errors, clearance, and so forth. Based on the parameters of an actual project and the strong impact of external excitations, the modal properties and dynamic responses are analyzed, and the cutterhead joint surface loads are obtained and treated by rain flow count. Numerical results indicate that the low natural frequencies are 57 Hz and 61 Hz, and natural vibration modes are pinions-motors rotational mode and translational-overturning coupled mode of cutterhead with inner ring gear correspondingly. Besides, the axial and radial amplitude of dynamic responses are 0.55 mm and 0.25 mm, respectively. The frequencies of radial, torsional, and overturning vibrations are predominantly concentrated in 112 Hz and 120 Hz, which indicates that the vibration responses of cutterhead are mainly affected by the external excitations. Finally, as the rain-flow counting results have shown, the standard deviation of the cutterhead joint surface loads in each direction increases by 12–15 times, compared with that of the external excitations; therefore inertia effect should be considered in cutterhead design. The proposed research lays a foundation for dynamic performance optimization and fatigue crack growth life assessment of cutterhead structure.

  17. Statistical and dynamical properties of covariant lyapunov vectors in a coupled atmosphere-ocean model—multiscale effects, geometric degeneracy, and error dynamics

    Science.gov (United States)

    Vannitsem, Stéphane; Lucarini, Valerio

    2016-06-01

    We study a simplified coupled atmosphere-ocean model using the formalism of covariant Lyapunov vectors (CLVs), which link physically-based directions of perturbations to growth/decay rates. The model is obtained via a severe truncation of quasi-geostrophic equations for the two fluids, and includes a simple yet physically meaningful representation of their dynamical/thermodynamical coupling. The model has 36 degrees of freedom, and the parameters are chosen so that a chaotic behaviour is observed. There are two positive Lyapunov exponents (LEs), sixteen negative LEs, and eighteen near-zero LEs. The presence of many near-zero LEs results from the vast time-scale separation between the characteristic time scales of the two fluids, and leads to nontrivial error growth properties in the tangent space spanned by the corresponding CLVs, which are geometrically very degenerate. Such CLVs correspond to two different classes of ocean/atmosphere coupled modes. The tangent space spanned by the CLVs corresponding to the positive and negative LEs has, instead, a non-pathological behaviour, and one can construct robust large deviations laws for the finite time LEs, thus providing a universal model for assessing predictability on long to ultra-long scales along such directions. Interestingly, the tangent space of the unstable manifold has substantial projection on both atmospheric and oceanic components. The results show the difficulties in using hyperbolicity as a conceptual framework for multiscale chaotic dynamical systems, whereas the framework of partial hyperbolicity seems better suited, possibly indicating an alternative definition for the chaotic hypothesis. They also suggest the need for an accurate analysis of error dynamics on different time scales and domains and for a careful set-up of assimilation schemes when looking at coupled atmosphere-ocean models.

  18. Multicritical dynamical phase diagrams of the kinetic Blume-Emery-Griffiths model with repulsive biquadratic coupling in an oscillating field

    Energy Technology Data Exchange (ETDEWEB)

    Temizer, Umuet [Department of Physics, Bozok University, 66100 Yozgat (Turkey); Kantar, Ersin [Institute of Science, Erciyes University, 38039 Kayseri (Turkey); Keskin, Mustafa [Department of Physics, Erciyes University, 38039 Kayseri (Turkey)], E-mail: keskin@erciyes.edu.tr; Canko, Osman [Department of Physics, Erciyes University, 38039 Kayseri (Turkey)

    2008-06-15

    We study, within a mean-field approach, the stationary states of the kinetic Blume-Emery-Griffiths model with repulsive biquadratic coupling under the presence of a time-varying (sinusoidal) magnetic field. We employ the Glauber-type stochastic dynamics to construct set of dynamic equations of motion. The behavior of the time dependence of the order parameters and the behavior of the average order parameters in a period, which is also called the dynamic order parameters, as functions of the reduced temperature are investigated. The dynamic phase transition points are calculated and phase diagrams are presented in the reduced magnetic field amplitude and reduced temperature plane. The dynamical transition from one regime to the other can be of first- or second order depending on the region in the phase diagram. According to the values of the crystal field interaction or single-ion anisotropy constant and biquadratic exchange constant, we find 20 fundamental types of phase diagrams which exhibit many dynamic critical points, such as tricritical points, zero-temperature critical points, double critical end points, critical end point, triple point and multicritical point. Moreover, besides a disordered and ordered phases, seven coexistence phase regions exist in the system.

  19. Preheating after multifield inflation with nonminimal couplings. III. Dynamical spacetime results

    Science.gov (United States)

    DeCross, Matthew P.; Kaiser, David I.; Prabhu, Anirudh; Prescod-Weinstein, Chanda; Sfakianakis, Evangelos I.

    2018-01-01

    This paper concludes our semianalytic study of preheating in inflationary models comprised of multiple scalar fields coupled nonminimally to gravity. Using the covariant framework of paper I in this series, we extend the rigid-spacetime results of paper II by considering both the expansion of the Universe during preheating, as well as the effect of the coupled metric perturbations on particle production. The adiabatic and isocurvature perturbations are governed by different effective masses that scale differently with the nonminimal couplings and evolve differently in time. The effective mass for the adiabatic modes is dominated by contributions from the coupled metric perturbations immediately after inflation. The metric perturbations contribute an oscillating tachyonic term that enhances an early period of significant particle production for the adiabatic modes, which ceases on a time scale governed by the nonminimal couplings ξI . The effective mass of the isocurvature perturbations, on the other hand, is dominated by contributions from the fields' potential and from the curvature of the field-space manifold (in the Einstein frame), the balance between which shifts on a time scale governed by ξI. As in papers I and II, we identify distinct behavior depending on whether the nonminimal couplings are small [ξI≲O (1 ) ], intermediate [ξI˜O (1 -10 ) ], or large (ξI≥100 ).

  20. Molecular characterization of beta-tubulin from Phakopsora pachyrhizi, the causal agent of Asian soybean rust

    Directory of Open Access Journals (Sweden)

    Talles Eduardo Ferreira Maciel

    2010-01-01

    Full Text Available β-tubulins are structural components of microtubules and the targets of benzimidazole fungicides used to control many diseases of agricultural importance. Intron polymorphisms in the intron-rich genes of these proteins have been used in phylogeographic investigations of phytopathogenic fungi. In this work, we sequenced 2764 nucleotides of the β-tubulin gene (Pp tubB in samples of Phakopsora pachyrhizi collected from seven soybean fields in Brazil. Pp tubB contained an open reading frame of 1341 nucleotides, including nine exons and eight introns. Exon length varied from 14 to 880 nucleotides, whereas intron length varied from 76 to 102 nucleotides. The presence of only four polymorphic sites limited the usefulness of Pp tubB for phylogeographic studies in P. pachyrhizi. The gene structures of Pp tubB and orthologous β-tubulin genes of Melampsora lini and Uromyces viciae-fabae were highly conserved. The amino acid substitutions in β-tubulin proteins associated with the onset of benzimidazole resistance in model organisms, especially at His6, Glu198 and Phe200, were absent from the predicted sequence of the P. pachyrhizi β-tubulin protein.

  1. Binding of dihydroxynaphthyl aryl ketones to tubulin colchicine site inhibits microtubule assembly.

    Science.gov (United States)

    Gutierrez, Eunices; Benites, Julio; Valderrama, Jaime A; Calderon, Pedro Buc; Verrax, Julien; Nova, Esteban; Villanelo, Felipe; Maturana, Daniel; Escobar, Cristian; Lagos, Rosalba; Monasterio, Octavio

    2015-10-23

    Dihydroxynaphthyl aryl ketones 1-5 have been evaluated for their abilities to inhibit microtubule assembly and the binding to tubulin. Compounds 3, 4 and 5 displayed competitive inhibition against colchicine binding, and docking analysis showed that they bind to the tubulin colchicine-binding pocket inducing sheets instead of microtubules. Remarkable differences in biological activity observed among the assayed compounds seem to be related to the structure and position of the aryl substituent bonded to the carbonyl group. Compounds 2, 3 and 4, which contain a heterocyclic ring, presented higher affinity for tubulin compared to the carbocyclic analogue 5. Compound 4 showed the best affinity of the series, with an IC50 value of 2.1 μM for microtubule polymerization inhibition and a tubulin dissociation constant of 1.0 ± 0.2 μM, as determined by thermophoresis. Compound 4 was more efficacious in disrupting microtubule assembly in vitro than compound 5 although it contains the trimethoxyphenyl ring present in colchicine. Hydrogen bonds with Asn101 of α-tubulin seem to be responsible for the higher affinity of compound 4 respects to the others. Copyright © 2015 Elsevier Inc. All rights reserved.

  2. Characterization of the carrot beta-tubulin gene coding a divergent isotype, beta-2.

    Science.gov (United States)

    Okamura, S; Naito, K; Sonehara, S; Ohkawa, H; Kuramori, S; Tatsuta, M; Minamizono, M; Kataoka, T

    1997-04-01

    Four different beta-tubulin clones were isolated from carrot genomic and cDNA libraries. Their nucleotide sequences were determined 1 and their predicted amino acids were compared with each other. The predicted amino acid composition of the C-terminal region of three of them (beta-1, 3, 4) resembled one another, but that of one isotype (beta-2) was divergent. The beta-2 tubulin included two hydroxyl amino acids, serine and threonine, and consisted of a lower number of negatively charged amino acids than the others in the C-terminal region. The predicted hydrophobicity profile of the beta-2 tubulin around the residue 200 is less hydrophobic than beta-1, but it is still more hydrophobic than those of animal and fungal beta-tubulins. The beta-2 gene was transcribed in cultured cells and flowers, while the beta-1 gene was ubiquitously transcribed in cultured cells, roots, shoots and flowers. When the predicted amino acids of plant tubulin were compared with those of other organisms, substitutions from non-polar amino acids to those with hydroxyl group were conspicuous in the region corresponding to the third exon in the plant genes.

  3. Molecular characterization of beta-tubulin from Phakopsora pachyrhizi, the causal agent of Asian soybean rust.

    Science.gov (United States)

    Maciel, Talles Eduardo Ferreira; Freire, Maíra Cristina Menezes; de Almeida, Alvaro M R; de Oliveira, Luiz Orlando

    2010-04-01

    β-tubulins are structural components of microtubules and the targets of benzimidazole fungicides used to control many diseases of agricultural importance. Intron polymorphisms in the intron-rich genes of these proteins have been used in phylogeographic investigations of phytopathogenic fungi. In this work, we sequenced 2764 nucleotides of the β-tubulin gene (Pp tubB) in samples of Phakopsora pachyrhizi collected from seven soybean fields in Brazil. Pp tubB contained an open reading frame of 1341 nucleotides, including nine exons and eight introns. Exon length varied from 14 to 880 nucleotides, whereas intron length varied from 76 to 102 nucleotides. The presence of only four polymorphic sites limited the usefulness of Pp tubB for phylogeographic studies in P. pachyrhizi. The gene structures of Pp tubB and orthologous β-tubulin genes of Melampsora lini and Uromyces viciae-fabae were highly conserved. The amino acid substitutions in β-tubulin proteins associated with the onset of benzimidazole resistance in model organisms, especially at His (6) , Glu (198) and Phe (200) , were absent from the predicted sequence of the P. pachyrhizi β-tubulin protein.

  4. Dynamic models of G-protein coupled receptor dimers: indications of asymmetry in the rhodopsin dimer from molecular dynamics simulations in a POPC bilayer

    Science.gov (United States)

    Filizola, Marta; Wang, Simon X.; Weinstein, Harel

    2006-08-01

    Based on the growing evidence that G-protein coupled receptors (GPCRs) form homo- and hetero-oligomers, models of GPCR signaling are now considering macromolecular assemblies rather than monomers, with the homo-dimer regarded as the minimal oligomeric arrangement required for functional coupling to the G-protein. The dynamic mechanisms of such signaling assemblies are unknown. To gain some insight into properties of GPCR dimers that may be relevant to functional mechanisms, we study their current structural prototype, rhodopsin. We have carried out nanosecond time-scale molecular dynamics (MD) simulations of a rhodopsin dimer and compared the results to the monomer simulated in the same type of bilayer membrane model composed of an equilibrated unit cell of hydrated palmitoyl-oleoyl-phosphatidyl choline (POPC). The dynamic representation of the homo-dimer reveals the location of structural changes in several regions of the monomeric subunits. These changes appear to be more pronounced at the dimerization interface that had been shown to be involved in the activation process [Proc Natl Acad Sci USA 102:17495, 2005]. The results are consistent with a model of GPCR activation that involves allosteric modulation through a single GPCR subunit per dimer.

  5. Coupling of the computational fluid dynamics code ANSYS CFX with the 3D neutron kinetic core model DYN3D

    International Nuclear Information System (INIS)

    Kliem, S.; Grahn, A.; Rohde, U.; Schuetze, J.; Frank, Th.

    2010-01-01

    The computational fluid dynamics code ANSYS CFX has been coupled with the neutron-kinetic core model DYN3D. ANSYS CFX calculates the fluid dynamics and related transport phenomena in the reactors coolant and provides the corresponding data to DYN3D. In the fluid flow simulation of the coolant, the core itself is modeled within the porous body approach. DYN3D calculates the neutron kinetics and the fuel behavior including the heat transfer to the coolant. The physical data interface between the codes is the volumetric heat release rate into the coolant. In the prototype that is currently available, the coupling is restricted to single-phase flow problems. In the time domain an explicit coupling of the codes has been implemented so far. Steady-state and transient verification calculations for two small-size test problems confirm the correctness of the implementation of the prototype coupling. The first test problem was a mini-core consisting of nine real-size fuel assemblies with quadratic cross section. Comparison was performed with the DYN3D stand-alone code. In the steady state, the effective multiplication factor obtained by the DYN3D/ANSYS CFX codes hows a deviation of 9.8 pcm from the DYN3D stand-alone solution. This difference can be attributed to the use of different water property packages in the two codes. The transient test case simulated the withdrawal of the control rod from the central fuel assembly at hot zero power in the same mini-core. Power increase during the introduction of positive reactivity and power reduction due to fuel temperature increase are calculated in the same manner by the coupled and the stand-alone codes. The maximum values reached during the power rise differ by about 1 MW at a power level of 50 MW. Beside the different water property packages, these differences are caused by the use of different flow solvers. The same calculations were carried for a mini-core with seven real-size fuel assemblies with hexagonal cross section in

  6. Public health impact of disease-behavior dynamics. Comment on "Coupled disease-behavior dynamics on complex networks: A review" by Z. Wang et al.

    Science.gov (United States)

    Wells, Chad R.; Galvani, Alison P.

    2015-12-01

    In a loop of dynamic feedback, behavior such as the decision to vaccinate, hand washing, or avoidance influences the progression of the epidemic, yet behavior is driven by the individual's and population's perceived risk of infection during an outbreak. In what we believe will become a seminal paper that stimulates future research as well as an informative teaching aid, Wang et. al. comprehensively review methodological advances that have been used to incorporate human behavior into epidemiological models on the effects of coupling disease transmission and behavior on complex social networks [1]. As illustrated by the recent outbreaks of measles and Middle Eastern Respiratory Syndrome (MERS), here we highlight the importance of coupling behavior and disease transmission that Wang et al. address.

  7. Dynamic Response Analysis of an Asymmetric Coupled Vehicle-Track System Generated by Voided Elastic Two-Block Sleeper

    Directory of Open Access Journals (Sweden)

    Zhenxing He

    2016-01-01

    Full Text Available Based on vehicle-track coupled dynamic theory, a three-dimensional asymmetric vehicle-track coupling vibration model is developed to investigate the effect of voided elastic two-block sleepers on vehicle and track system dynamic responses. For the vehicle system, one car body, two frames, and four wheel sets are assumed to be rigid, with 35 degrees of freedom (DOF. For the track system, the rails and the concrete two-block sleepers are the main vibration components. The rails are modelled as Timoshenko beams, and the concrete two-block sleepers are assumed to be rigid mass with vertical and lateral movement. The pads under the rails and the rubber boots under the sleepers provide greater vertical and lateral elasticity for the track. The Hertz nonlinear elastic contact theory is used to calculate the normal wheel/rail force. The wheel/rail tangent creep force is first calculated using Kalker’s linear creep theory and then modified by the Shen-Hedrick-Elkins theory. The results show that the asymmetric voided elastic two-block sleepers have greater effects on the dynamic responses for fasteners and sleepers than on the car body and the wheel/rail forces under measured geometric irregularity and random irregularity. Two or more voided sleepers will greatly affect the vehicle running safety.

  8. Gauge/gravity duality, jets in strongly coupled plasma, and far-from-equilibrium dynamics in conformal field theories

    Science.gov (United States)

    Chesler, Paul M.

    We study dynamics in conformal field theories with gravitational duals. Attention is focused on heavy and light quark jets as well as far-from-equilibrium dynamics. The stress-energy tensor of a heavy quark moving through a strongly coupled N = 4 supersymmetric Yang-Mills plasma is evaluated using gauge/gravity duality. The accuracy with which the resulting wake, in position space, is reproduced by hydrodynamics is examined. Remarkable agreement is found between hydrodynamics and the complete result down to distances less than 2/ T away from the quark. We also compute the penetration depth of a light quark moving through a N = 4 supersymmetric Yang-Mills plasma using a combination of analytic and numerical techniques. We find that the maximum distance a quark with energy E can travel through a plasma is given by Dxmax E= C/T E/Tl 1/3 with C ≈ 0.5. For the study of dynamics far-from-equilibrium, we consider the creation and evolution of boost invariant anisotropic, strongly coupled conformal plasma. In the dual gravitational description, this corresponds to horizon formation in a geometry driven to be anisotropic by a time-dependent change in boundary conditions.

  9. Reconstructing the Nd oceanic cycle using a coupled dynamical – biogeochemical model

    Directory of Open Access Journals (Sweden)

    T. Arsouze

    2009-12-01

    Full Text Available The decoupled behaviour observed between Nd isotopic composition (Nd IC, also referred as εNd and Nd concentration cycles has led to the notion of a "Nd paradox". While εNd behaves in a quasi-conservative way in the open ocean, leading to its broad use as a water-mass tracer, Nd concentration displays vertical profiles that increase with depth, together with a deep-water enrichment along the global thermohaline circulation. This non-conservative behaviour is typical of nutrients affected by scavenging in surface waters and remineralisation at depth. In addition, recent studies suggest the only way to reconcile both concentration and Nd IC oceanic budgets, is to invoke a "Boundary Exchange" process (BE, defined as the co-occurrence of transfer of elements from the margin to the sea with removal of elements from the sea by Boundary Scavenging as a source-sink term. However, these studies do not simulate the input/output fluxes of Nd to the ocean, and therefore prevents from crucial information that limits our understanding of Nd decoupling. To investigate this paradox on a global scale, this study uses for the first time a fully prognostic coupled dynamical/biogeochemical model with an explicit representation of Nd sources and sinks to simulate the Nd oceanic cycle. Sources considered include dissolved river fluxes, atmospheric dusts and margin sediment re-dissolution. Sinks are scavenging by settling particles. This model simulates the global features of the Nd oceanic cycle well, and produces a realistic distribution of Nd concentration (correct order of magnitude, increase with depth and along the conveyor belt, 65% of the simulated values fit in the ±10 pmol/kg envelop when compared to the data and isotopic composition (inter-basin gradient, characterization of the main water-masses, more than 70% of the simulated values fit in the ±3 εNd envelop when compared to the data, though a slight overestimation of

  10. Geographic coupling of juvenile and adult habitat shapes spatial population dynamics of a coral reef fish

    NARCIS (Netherlands)

    Huijbers, C.M.; Nagelekerken, I.; Debrot, A.O.; Jongejans, E.

    2013-01-01

    Marine spatial population dynamics are often addressed with a focus on larval dispersal, without taking into account movement behavior of individuals in later life stages. Processes occurring during demersal life stages may also drive spatial population dynamics if habitat quality is perceived

  11. “I told her this is your life”: Relationship Dynamics, Partner Support, and Adherence to Antiretroviral Therapy among South African Couples

    OpenAIRE

    Conroy, Amy; Leddy, Anna; Johnson, Mallory; Ngubane, Thulani; van Rooyen, Heidi; Darbes, Lynae

    2017-01-01

    Despite the important role of social relationships on health and well-being, little is known about how primary partners affect adherence to HIV care and treatment. We qualitatively explored how relationship dynamics and partner support influence adherence among couples from KwaZulu-Natal, South Africa. Twenty-four heterosexual couples with at least one HIV-positive partner completed semi-structured interviews on topics including relationship dynamics (intimacy or emotional closeness, communic...

  12. An extended coupling model description of the evolution of dynamics with time in supercooled liquids and ionic conductors

    International Nuclear Information System (INIS)

    Ngai, K L

    2003-01-01

    In the past the coupling model (CM) was focused on the dynamics at long times, when all relaxing units of an interacting system participate in the terminal, cooperative Kohlrausch relaxation. No attention was paid to the dynamics at short times when all the relaxing units are caged, nor to intermediate times when an increasing number of them are no longer caged. We now extend the CM to also address the dynamics in these earlier time regimes. The crux of the extended CM is the quantitatively determinable independent relaxation time, from which the characteristics of the dynamics in the short-time and intermediate-time regimes can be deduced. This description of the evolution of the dynamics by the extended CM is supported by broadband dielectric relaxation spectra of two archetypal systems, the glassy/molten ionic conductors and supercooled liquids. In supercooled liquids, the 'universal' Johari-Goldstein β-relaxation provides evidence for the physical reality of the independent relaxation of the extended CM

  13. Dynamics of a bilayer membrane coupled to a two-dimensional cytoskeleton: Scale transfers of membrane deformations

    Science.gov (United States)

    Okamoto, Ryuichi; Komura, Shigeyuki; Fournier, Jean-Baptiste

    2017-07-01

    We theoretically investigate the dynamics of a floating lipid bilayer membrane coupled with a two-dimensional cytoskeleton network, taking into account explicitly the intermonolayer friction, the discrete lattice structure of the cytoskeleton, and its prestress. The lattice structure breaks lateral continuous translational symmetry and couples Fourier modes with different wave vectors. It is shown that within a short time interval a long-wavelength deformation excites a collection of modes with wavelengths shorter than the lattice spacing. These modes relax slowly with a common renormalized rate originating from the long-wavelength mode. As a result, and because of the prestress, the slowest relaxation is governed by the intermonolayer friction. Conversely, and most interestingly, forces applied at the scale of the cytoskeleton for a sufficiently long time can cooperatively excite large-scale modes.

  14. What’s a (childless) man without a woman? The differential importance of couple dynamics for the well-being of childless men and women

    OpenAIRE

    Keizer, R.; Ivanova, K.; Kreyenfeld, M.; Konietzka, D.

    2017-01-01

    Using rich couple data from the Netherlands Kinship Panel Study, we investigated to what extent there were gender differences in couple dynamics within childless couples (N = 163). Though the childless partners reported similar relationship satisfaction, we found gender differences in the link between relationship conflict and relationship satisfaction – the childless men were more strongly affected by the negative aspects of the partnership. This gender difference was not evident for the ass...

  15. Molecular states of HeH/sup +/. Energies and dynamical couplings

    Energy Technology Data Exchange (ETDEWEB)

    Macias, A.; Riera, A.; Yanez, M.

    1983-01-01

    We complete the molecular results reported in a previous paper by presenting additional energies (for /sup 1,3/..sigma.. states) and radial couplings (between '..sigma.. states) of the HeH/sup +/ system. These results are needed to treat elastic and inelastic charge-exchange processes when full account is taken of momentum-transfer problems. We also present a formalism to calculate radial couplings between wave functions computed with the use of different variational methods and basis sets. The detailed form of the radial couplings is discussed and related to the Barat-Lichten correlation diagram. The effect of using finite basis sets in calculatig degenerate molecular energies is also discussed.

  16. Decay dynamics of radiatively coupled quantum dots in photonic crystal slabs

    DEFF Research Database (Denmark)

    Kristensen, Philip Trøst; Mørk, Jesper; Lodahl, Peter

    2011-01-01

    We theoretically investigate the influence of radiative coupling on light emission in a photonic crystal slab structure. The calculation method is based on a formalism that combines the photon Green's tensor with a self-consistent Dyson equation approach and is applicable to a wide range of probl......We theoretically investigate the influence of radiative coupling on light emission in a photonic crystal slab structure. The calculation method is based on a formalism that combines the photon Green's tensor with a self-consistent Dyson equation approach and is applicable to a wide range...

  17. Fully implicit, coupled procedures in computational fluid dynamics an engineer's resource book

    CERN Document Server

    Mazhar, Zeka

    2016-01-01

    This book introduces a new generation of superfast algorithms for the treatment of the notoriously difficult velocity-pressure coupling problem in incompressible fluid flow solutions. It provides all the necessary details for the understanding and implementation of the procedures. The derivation and construction of the fully-implicit, block-coupled, incomplete decomposition mechanism are given in a systematic, but easy fashion. Worked-out solutions are included, with comparisons and discussions. A complete program code is included for faster implementation of the algorithm. A brief literature review of the development of the classical solution procedures is included as well. .

  18. Coupling nitrogen-vacancy centers to a dynamic ferromagnetic vortex for fast, nanoscale spin addressability and control

    Science.gov (United States)

    Berezovsky, Jesse

    As we begin to look at how spin qubits might be integrated into a scalable platform, a promising strategy is to engineer the magnetic environment of the spins using micron- or nanometer-scale ferromagnetic (FM) elements, for functionalities such as nanoscale addressability, spin-wave mediated coupling, or enhanced sensing. The promise of these FM/spin interactions brings with it the question of how the coherence properties of the spin will be affected by coupling to these complex mesoscopic systems. To explore the physics of individual spins coupled to a proximal, dynamic ferromagnetic structure, we have studied interactions between individual nitrogen-vacancy (NV) spins and a model FM system - a vortex magnetization state. The complex, yet controllable, spin texture of a FM vortex, formed in a thin disk or nanowire, allows one to study different regimes of interaction with a nearby confined spin. The vortex core produces a large static dipole-like fringe field. The vortex state also displays discrete dynamic modes ranging from several 100 MHz to GHz. By applying an in-plane magnetic field, the position of the vortex core relative to the NV spin can be controlled with nanometer-scale resolution, and time resolution of 10s of nanoseconds. As the vortex core is translated into proximity with an NV spin, the fringe field from the core generates a large position-dependent spin splitting, permitting nanoscale spin addressability. We also find that the dynamic interaction of the vortex, NV spin, and applied microwave field results in amplification of the Rabi transition rate by more than an order of magnitude. Finally, we explore how spin decoherence and relaxation mechanisms are enhanced as the vortex core approaches the NVs, with implications for proposed technology incorporating coherent spins and proximal FM elements. We acknowledge support from DOE, Award No. DE-SC008148.

  19. Using Landsat time series for characterizing forest disturbance dynamics in the coupled human and natural systems of Central Europe

    Science.gov (United States)

    Senf, Cornelius; Pflugmacher, Dirk; Hostert, Patrick; Seidl, Rupert

    2017-08-01

    Remote sensing is a key information source for improving the spatiotemporal understanding of forest ecosystem dynamics. Yet, the mapping and attribution of forest change remains challenging, particularly in areas where a number of interacting disturbance agents simultaneously affect forest development. The forest ecosystems of Central Europe are coupled human and natural systems, with natural and human disturbances affecting forests both individually and in combination. To better understand the complex forest disturbance dynamics in such systems, we utilize 32-year Landsat time series to map forest disturbances in five sites across Austria, the Czech Republic, Germany, Poland, and Slovakia. All sites consisted of a National Park and the surrounding forests, reflecting three management zones of different levels of human influence (managed, protected, strictly protected). This allowed for a comparison of spectral, temporal, and spatial disturbance patterns across a gradient from natural to coupled human and natural disturbances. Disturbance maps achieved overall accuracies ranging from 81% to 93%. Disturbance patches were generally small, with 95% of the disturbances being smaller than 10 ha. Disturbance rates ranged from 0.29% yr-1 to 0.95% yr-1, and differed substantially among management zones and study sites. Natural disturbances in strictly protected areas were longer in duration (median of 8 years) and slightly less variable in magnitude compared to human-dominated disturbances in managed forests (median duration of 1 year). However, temporal dynamics between natural and human-dominated disturbances showed strong synchrony, suggesting that disturbance peaks are driven by natural events affecting managed and unmanaged areas simultaneously. Our study demonstrates the potential of remote sensing for mapping forest disturbances in coupled human and natural systems, such as the forests of Central Europe. Yet, we also highlight the complexity of such systems in terms

  20. Dynamical and thermodynamical coupling between the North Atlantic subtropical high and the marine boundary layer clouds in boreal summer

    Science.gov (United States)

    Wei, Wei; Li, Wenhong; Deng, Yi; Yang, Song; Jiang, Jonathan H.; Huang, Lei; Liu, W. Timothy

    2018-04-01

    This study investigates dynamical and thermodynamical coupling between the North Atlantic subtropical high (NASH), marine boundary layer (MBL) clouds, and the local sea surface temperatures (SSTs) over the North Atlantic in boreal summer for 1984-2009 using NCEP/DOE Reanalysis 2 dataset, various cloud data, and the Hadley Centre sea surface temperature. On interannual timescales, the summer mean subtropical MBL clouds to the southeast of the NASH is actively coupled with the NASH and local SSTs: a stronger (weaker) NASH is often accompanied with an increase (a decrease) of MBL clouds and abnormally cooler (warmer) SSTs along the southeast flank of the NASH. To understand the physical processes between the NASH and the MBL clouds, the authors conduct a data diagnostic analysis and implement a numerical modeling investigation using an idealized anomalous atmospheric general circulation model (AGCM). Results suggest that significant northeasterly anomalies in the southeast flank of the NASH associated with an intensified NASH tend to induce stronger cold advection and coastal upwelling in the MBL cloud region, reducing the boundary surface temperature. Meanwhile, warm advection associated with the easterly anomalies from the African continent leads to warming over the MBL cloud region at 700 hPa. Such warming and the surface cooling increase the atmospheric static stability, favoring growth of the MBL clouds. The anomalous diabatic cooling associated with the growth of the MBL clouds dynamically excites an anomalous anticyclone to its north and contributes to strengthening of the NASH circulation in its southeast flank. The dynamical and thermodynamical couplings and their associated variations in the NASH, MBL clouds, and SSTs constitute an important aspect of the summer climate variability over the North Atlantic.

  1. Crystallization and preliminary X-ray analysis of tubulin-folding cofactor A from Arabidopsis thaliana

    International Nuclear Information System (INIS)

    Lu, Lu; Nan, Jie; Mi, Wei; Wei, Chun-Hong; Li, Lan-Fen; Li, Yi

    2010-01-01

    Tubulin-folding cofactor A from A. thaliana has been crystallized and preliminarily analyzed using X-ray diffraction. Tubulin-folding cofactor A (TFC A) is a molecular post-chaperonin that is involved in the β-tubulin-folding pathway. It has been identified in many organisms including yeasts, humans and plants. In this work, Arabidopsis thaliana TFC A was expressed in Escherichia coli and purified to homogeneity. After thrombin cleavage, a well diffracting crystal was obtained by the sitting-drop vapour-diffusion method at 289 K. The crystal diffracted to 1.6 Å resolution using synchrotron radiation and belonged to space group I4 1 , with unit-cell parameters a = 55.0, b = 55.0, c = 67.4 Å

  2. Blocking Blood Flow to Solid Tumors by Destabilizing Tubulin: An Approach to Targeting Tumor Growth.

    Science.gov (United States)

    Pérez-Pérez, María-Jesús; Priego, Eva-María; Bueno, Oskía; Martins, Maria Solange; Canela, María-Dolores; Liekens, Sandra

    2016-10-13

    The unique characteristics of the tumor vasculature offer the possibility to selectively target tumor growth and vascularization using tubulin-destabilizing agents. Evidence accumulated with combretastatin A-4 (CA-4) and its prodrug CA-4P support the therapeutic value of compounds sharing this mechanism of action. However, the chemical instability and poor solubility of CA-4 demand alternative compounds that are able to surmount these limitations. This Perspective illustrates the different classes of compounds that behave similar to CA-4, analyzes their binding mode to αβ-tubulin according to recently available structural complexes, and includes described approaches to improve their delivery. In addition, dissecting the mechanism of action of CA-4 and analogues allows a closer insight into the advantages and drawbacks associated with these tubulin-destabilizing agents that behave as vascular disrupting agents (VDAs).

  3. Effect of radio frequency waves of electromagnetic field on the tubulin.

    Science.gov (United States)

    Taghi, Mousavi; Gholamhosein, Riazi; Saeed, Rezayi-Zarchi

    2013-09-01

    Microtubules (MTs) are macromolecular structures consisting of tubulin heterodimers and present in almost every eukaryotic cell. MTs fulfill all conditions for generation of electromagnetic field and are electrically polar due to the electrical polarity of a tubulin heterodimer. The calculated static electric dipole moment of about 1000 Debye makes them capable of being aligned parallel to the applied electromagnetic field direction. In the present study, the tubulin heterodimers were extracted and purified from the rat brains. MTs were obtained by polymerization in vitro. Samples of microtubules were adsorbed in the absence and in the presence of electromagnetic fields with radio frequency of 900 Hz. Our results demonstrate the effect of electromagnetic field with 900 Hz frequency to change the structure of MTs. In this paper, a related patent was used that will help to better understand the studied subject.

  4. A novel polymer of tubulin forms the conoid of Toxoplasma gondii

    Science.gov (United States)

    Hu, Ke; Roos, David S.; Murray, John M.

    2002-01-01

    Toxoplasma gondii is an obligatory intracellular parasite, an important human pathogen, and a convenient laboratory model for many other human and veterinary pathogens in the phylum Apicomplexa, such as Plasmodium, Eimeria, and Cryptosporidia. 22 subpellicular microtubules form a scaffold that defines the cell shape of T. gondii. Its cytoskeleton also includes an intricate apical structure consisting of the conoid, two intraconoid microtubules, and two polar rings. The conoid is a 380-nm diameter motile organelle, consisting of fibers wound into a spiral like a compressed spring. FRAP analysis of transgenic T. gondii expressing YFP-α-tubulin reveals that the conoid fibers are assembled by rapid incorporation of tubulin subunits during early, but not late, stages of cell division. Electron microscopic analysis shows that in the mature conoid, tubulin is arranged into a novel polymer form that is quite different from typical microtubules. PMID:11901169

  5. Non-steady state mass action dynamics without rate constants: dynamics of coupled reactions using chemical potentials

    Science.gov (United States)

    Cannon, William R.; Baker, Scott E.

    2017-10-01

    Comprehensive and predictive simulation of coupled reaction networks has long been a goal of biology and other fields. Currently, metabolic network models that utilize enzyme mass action kinetics have predictive power but are limited in scope and application by the fact that the determination of enzyme rate constants is laborious and low throughput. We present a statistical thermodynamic formulation of the law of mass action for coupled reactions at both steady states and non-stationary states. The formulation uses chemical potentials instead of rate constants. When used to model deterministic systems, the method corresponds to a rescaling of the time dependent reactions in such a way that steady states can be reached on the same time scale but with significantly fewer computational steps. The relationships between reaction affinities, free energy changes and generalized detailed balance are central to the discussion. The significance for applications in systems biology are discussed as is the concept and assumption of maximum entropy production rate as a biological principle that links thermodynamics to natural selection.

  6. Nonlinear Dynamics, Fixed Points and Coupled Fixed Points in Generalized Gauge Spaces with Applications to a System of Integral Equations

    Directory of Open Access Journals (Sweden)

    Adrian Petruşel

    2015-01-01

    Full Text Available We will discuss discrete dynamics generated by single-valued and multivalued operators in spaces endowed with a generalized metric structure. More precisely, the behavior of the sequence (fn(xn∈N of successive approximations in complete generalized gauge spaces is discussed. In the same setting, the case of multivalued operators is also considered. The coupled fixed points for mappings t1:X1×X2→X1 and t2:X1×X2→X2 are discussed and an application to a system of nonlinear integral equations is given.

  7. Synthesis, anticancer activity, and inhibition of tubulin polymerization by conformationally restricted analogues of lavendustin A.

    Science.gov (United States)

    Mu, Fanrong; Hamel, Ernest; Lee, Debbie J; Pryor, Donald E; Cushman, Mark

    2003-04-24

    Compounds in the lavendustin A series have been shown to inhibit both protein-tyrosine kinases (PTKs) and tubulin polymerization. Since certain lavendustin A derivatives can exist in conformations that resemble both the trans-stilbene structure of the PTK inhibitor piceatannol and the cis-stilbene structure of the tubulin polymerization inhibitor combretastatin A-4, the possibility exists that the ratio of the two types of activities of the lavendustins could be influenced through the synthesis of conformationally restricted analogues. Accordingly, the benzylaniline structure of a series of pharmacologically active lavendustin A fragments was replaced by either their cis- or their trans-stilbene relatives, and effects on both inhibition of tubulin polymerization and cytotoxicity in cancer cell cultures were monitored. Both dihydrostilbene and 1,2-diphenylalkyne congeners were also prepared and evaluated biologically. Surprisingly, conformational restriction of the bridge between the two aromatic rings of the lavendustins had no significant effect on biological activity. On the other hand, conversion of the three phenolic hydroxyl groups of the lavendustin A derivatives to their corresponding methyl ethers consistently abolished their ability to inhibit tubulin polymerization and usually decreased cytotoxicity in cancer cell cultures as well, indicating the importance of at least one of the phenolic hydroxyl groups. Further investigation suggested that the phenolic hydroxyl group in the salicylamide ring was required for activity, while the two phenol moieties in the hydroquinone ring could be methylated with retention of activity. Two of the lavendustin A derivatives displayed IC(50) values of 1.4 microM for inhibition of tubulin polymerization, which ranks them among the most potent of the known tubulin polymerization inhibitors.

  8. Mutations in alpha- and beta-tubulin affect spindle formation in Chinese hamster ovary cells.

    Science.gov (United States)

    Abraham, I; Marcus, M; Cabral, F; Gottesman, M M

    1983-10-01

    Two Chinese hamster ovary cell lines with mutated beta-tubulins (Grs-2 and Cmd-4) and one that has a mutation in alpha-tubulin (Tax-1) are temperature sensitive for growth at 40.5 degrees C. To determine the functional defect in these mutant cells at the nonpermissive temperature, they were characterized with respect to cell cycle parameters and microtubule organization and function after relatively short periods at 40.5 degrees C. At the nonpermissive temperature all the mutants had normal appearing cytoplasmic microtubules. Premature chromosome condensation analysis failed to show any discrete step in the interphase cell cycle in which these mutants are arrested. These cells, however, show several defects at the nonpermissive temperature that appear related to the function of microtubules during mitosis. Time-lapse studies showed that mitosis was lengthened in the three mutant lines at 40.5 degrees C as compared with the wild-type cells at this temperature, resulting in a higher proportion of cells in mitosis after temperature shift. There was also a large increase in multinucleated cells in mutant populations after incubation at the nonpermissive temperature. Immunofluorescent studies using a monoclonal anti--alpha-tubulin antibody showed that the mutant cells had a high proportion of abnormal spindles at the nonpermissive temperature. The two altered beta-tubulins and the altered alpha-tubulin all were found to cause a similar phenotype at the high temperature that results in mitotic delay, defective cytokinesis, multinucleation, and ultimately, cell death. We conclude that spindle formation is the limiting microtubule function in these mutant cell lines at the nonpermissive temperature and that these cell lines will be of value for the study of the precise role of tubulin in mammalian spindle formation.

  9. A tripartite mode of action approach for investigating the impact of aneugens on tubulin polymerization.

    Science.gov (United States)

    Stock, Valerie; Sutter, Andreas; Raschke, Marian; Queisser, Nina

    2018-04-01

    Chemical-induced disruption of the cellular microtubule network is one key mechanism of aneugenicity. Since recent data indicate that genotoxic effects of aneugens show nonlinear dose-response relationships, margins of safety can be derived with the ultimate goal to perform a risk assessment for the support of drug development. Furthermore, microtubule-interacting compounds are widely used for cancer treatment. While there is a need to support the risk assessment of tubulin-interacting chemicals using reliable mechanistic assays, no standard assays exist to date in regulatory genotoxicity testing for the distinction of aneugenic mechanisms. Recently reported methods exclusively rely on either biochemical, morphological, or cytometric endpoints. Since data requirements for the diverse fields of application of those assays differ strongly, the use of multiple assays for a correct classification of aneugens is ideal. We here report a tripartite mode of action approach comprising a cell-free biochemical polymerization assay and the cell-based methods cellular imaging and flow cytometry. The biochemical assay measures tubulin polymerization over time whereas the two cell-based assays quantify tubulin polymer mass. We herein show that the flow cytometric method yielded IC 50 values for tubulin destabilizers and EC 50 values for tubulin stabilizers as well as cell cycle information. In contrast, cellular imaging complemented these findings with characteristic morphological patterns. Biochemical analysis yielded kinetic information on tubulin polymerization. This multiplex approach is able to create holistic effect profiles which can be individually customized to the research question with regard to quality, quantity, usability, and economy. Environ. Mol. Mutagen. 59:188-201, 2018. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

  10. Gas coning control for smart wells using a dynamic coupled well-reservoir simulator

    NARCIS (Netherlands)

    Leemhuis, A.P.; Nennie, E.D.; Belfroid, S.P.C.; Alberts, G.J.N.; Peters, E.; Joosten, G.J.P.

    2008-01-01

    A strong increase in gas inflow due to gas coning and the resulting bean-back because of Gas to Oil Ratio (GOR) constraints can severely limit oil production and reservoir drive energy. In this paper we will use a coupled reservoir-well model to demonstrate that oil production can be increased by

  11. Dynamics of two coupled chaotic multimode Nd:YAG lasers with ...

    Indian Academy of Sciences (India)

    YAG lasers with intracavity KTP crystal for frequency doubling. The chaotic behavior of such a laser has been studied extensively by many authors both experimentally and theoretically. [14–22]. The coupling of two chaotic Nd:YAG lasers have ...

  12. Life cycle based dynamic assessment coupled with multiple criteria decision analysis

    DEFF Research Database (Denmark)

    Sohn, Joshua; Kalbar, Pradip; Birkved, Morten

    2017-01-01

    the service life of the building. This case study uses both the established and the coupled MCDA assessment methods to quantify and assess the balance of impacts between the production of mineral wool insulation versus the production of space heat. The use of TOPSIS method for calculating single scores...

  13. Theoretical analysis of dynamic property for piezoelectric cantilever triple-layer benders with large piezoelectric and electromechanical coupling coefficients

    Directory of Open Access Journals (Sweden)

    Li Jiao Gong

    2016-09-01

    Full Text Available Ferroelectric single crystals, such as PZN-PT, provide novel prospects in piezoelectric bending devices such as actuators, sensors or energy harvesters because of their extraordinarily large piezoelectric coefficients. However, large errors may occur in some analyses on electromechanical behaviors using the conventional models. We find the bending rigidity of piezoelectric composited bender is affected not only by thickness, width and the modulus of elasticity of the different layers but also electromechanical coupling coefficients (EMCCs of the piezoelectric material and the larger EMCCs mean more marked effect. This paper focuses on the derivation of the applied input excitation and output response characteristics in the circular frequency domain for piezoelectric cantilever triple-layer benders (PCTBs, taking into account the secondary piezoelectric effect. Analytic dynamic descriptions of such actuators and transducers are obtained. Based on the presented models dynamic features of PCTB composed of PZN-8%PT are calculated, and numerical results coincide with simulations using the finite element method (FEM.

  14. Fully Coupled Three-Dimensional Dynamic Response of a Tension-Leg Platform Floating Wind Turbine in Waves and Wind

    DEFF Research Database (Denmark)

    Kumari Ramachandran, Gireesh Kumar Vasanta; Bredmose, Henrik; Sørensen, Jens Nørkær

    2014-01-01

    , which is a consequence of the wave-induced rotor dynamics. Loads and coupled responses are predicted for a set of load cases with different wave headings. Further, an advanced aero-elastic code, Flex5, is extended for the TLP wind turbine configuration and the response comparison with the simpler model......A dynamic model for a tension-leg platform (TLP) floating offshore wind turbine is proposed. The model includes three-dimensional wind and wave loads and the associated structural response. The total system is formulated using 17 degrees of freedom (DOF), 6 for the platform motions and 11...... for the wind turbine. Three-dimensional hydrodynamic loads have been formulated using a frequency-and direction-dependent spectrum. While wave loads are computed from the wave kinematics using Morison's equation, the aerodynamic loads are modeled by means of unsteady blade-element-momentum (BEM) theory...

  15. Vascular dynamics aid a coupled neurovascular network learn sparse independent features: A computational model

    Directory of Open Access Journals (Sweden)

    Ryan Thomas Philips

    2016-02-01

    Full Text Available Cerebral vascular dynamics are generally thought to be controlled by neural activity in a unidirectional fashion. However, both computational modeling and experimental evidence point to the feedback effects of vascular dynamics on neural activity. Vascular feedback in the form of glucose and oxygen controls neuronal ATP, either directly or via the agency of astrocytes, which in turn modulates neural firing. Recently, a detailed model of the neuron-astrocyte-vessel system has shown how vasomotion can modulate neural firing. Similarly, arguing from known cerebrovascular physiology, an approach known as `hemoneural hypothesis' postulates functional modulation of neural activity by vascular feedback. To instantiate this perspective, we present a computational model in which a network of `vascular units' supplies energy to a neural network. The complex dynamics of the vascular network, modeled by a network of oscillators, turns neurons ON and OFF randomly. The informational consequence of such dynamics is explored in the context of an auto-encoder network. In the proposed model, each vascular unit supplies energy to a subset of hidden neurons of an autoencoder network, which constitutes its `projective field'. Neurons that receive adequate energy in a given trial have reduced threshold, and thus are prone to fire. Dynamics of the vascular network are governed by changes in the reconstruction error of the auto-encoder network, interpreted as the neuronal demand. Vascular feedback causes random inactivation of a subset of hidden neurons in every trial. We observe that, under conditions of desynchronized vascular dynamics, the output reconstruction error is low and the feature vectors learnt are sparse and independent. Our earlier modeling study highlighted the link between desynchronized vascular dynamics and efficient energy delivery in skeletal muscle. We now show that desynchronized vascular dynamics leads to efficient training in an auto

  16. Vascular Dynamics Aid a Coupled Neurovascular Network Learn Sparse Independent Features: A Computational Model.

    Science.gov (United States)

    Philips, Ryan T; Chhabria, Karishma; Chakravarthy, V Srinivasa

    2016-01-01

    Cerebral vascular dynamics are generally thought to be controlled by neural activity in a unidirectional fashion. However, both computational modeling and experimental evidence point to the feedback effects of vascular dynamics on neural activity. Vascular feedback in the form of glucose and oxygen controls neuronal ATP, either directly or via the agency of astrocytes, which in turn modulates neural firing. Recently, a detailed model of the neuron-astrocyte-vessel system has shown how vasomotion can modulate neural firing. Similarly, arguing from known cerebrovascular physiology, an approach known as "hemoneural hypothesis" postulates functional modulation of neural activity by vascular feedback. To instantiate this perspective, we present a computational model in which a network of "vascular units" supplies energy to a neural network. The complex dynamics of the vascular network, modeled by a network of oscillators, turns neurons ON and OFF randomly. The informational consequence of such dynamics is explored in the context of an auto-encoder network. In the proposed model, each vascular unit supplies energy to a subset of hidden neurons of an autoencoder network, which constitutes its "projective field." Neurons that receive adequate energy in a given trial have reduced threshold, and thus are prone to fire. Dynamics of the vascular network are governed by changes in the reconstruction error of the auto-encoder network, interpreted as the neuronal demand. Vascular feedback causes random inactivation of a subset of hidden neurons in every trial. We observe that, under conditions of desynchronized vascular dynamics, the output reconstruction error is low and the feature vectors learnt are sparse and independent. Our earlier modeling study highlighted the link between desynchronized vascular dynamics and efficient energy delivery in skeletal muscle. We now show that desynchronized vascular dynamics leads to efficient training in an auto-encoder neural network.

  17. Coupled flight dynamics and CFD - demonstration for helicopters in shipborne environment

    OpenAIRE

    Crozon, C.; Steijl, R.; Barakos, G.N.

    2018-01-01

    The development of high-performance computing and computational fluid dynamics methods have evolved to the point where it is possible to simulate complete helicopter configurations with good accuracy. Computational fluid dynamics methods have also been applied to problems such as rotor/fuselage and main/tail rotor interactions, performance studies in hover and forward flight, rotor design, and so on. The GOAHEAD project is a good example of a coordinated effort to validate computational fluid...

  18. Phosphorylation of the yeast γ-tubulin Tub4 regulates microtubule function

    DEFF Research Database (Denmark)

    Lin, Tien-chen; Gombos, Linda; Neuner, Annett

    2011-01-01

    The yeast ¿-tubulin Tub4 is assembled with Spc97 and Spc98 into the small Tub4 complex. The Tub4 complex binds via the receptor proteins Spc72 and Spc110 to the spindle pole body (SPB), the functional equivalent of the mammalian centrosome, where the Tub4 complex organizes cytoplasmic and nuclear...... the functional relevance of the phosphorylation sites, phospho-mimicking and non-phosphorylatable mutations in Tub4, Spc97 and Spc98 were analyzed. Three phosphorylation sites in Tub4 were found to be critical for Tub4 stability and microtubule organization. One of the sites is highly conserved in ¿-tubulins...

  19. Complexes of γ-tubulin with nonreceptor protein tyrosine kinases Src and Fyn in differentiating P19 embryonal carcinoma cells

    International Nuclear Information System (INIS)

    Kukharskyy, Vitaliy; Sulimenko, Vadym; Macurek, Libor; Sulimenko, Tetyana; Draberova, Eduarda; Draber, Pavel

    2004-01-01

    Nonreceptor protein tyrosine kinases of the Src family have been shown to play an important role in signal transduction as well as in regulation of microtubule protein interactions. Here we show that γ-tubulin (γ-Tb) in P19 embryonal carcinoma cells undergoing neuronal differentiation is phosphorylated and forms complexes with protein tyrosine kinases of the Src family, Src and Fyn. Elevated expression of both kinases during differentiation corresponded with increased level of proteins phosphorylated on tyrosine. Immunoprecipitation experiments with antibodies against Src, Fyn, γ-tubulin, and with anti-phosphotyrosine antibody revealed that γ-tubulin appeared in complexes with these kinases. In vitro kinase assays showed tyrosine phosphorylation of proteins in γ-tubulin complexes isolated from differentiated cells. Pretreatment of cells with Src family selective tyrosine kinase inhibitor PP2 reduced the amount of phosphorylated γ-tubulin in the complexes. Binding experiments with recombinant SH2 and SH3 domains of Src and Fyn kinases revealed that protein complexes containing γ-tubulin bound to SH2 domains and that these interactions were of SH2-phosphotyrosine type. The combined data suggest that Src family kinases might have an important role in the regulation of γ-tubulin interaction with tubulin dimers or other proteins during neurogenesis

  20. Fracture Evolution Around a Cavity in Brittle Rock Under Uniaxial Compression and Coupled Static-Dynamic Loads

    Science.gov (United States)

    Weng, Lei; Li, Xibing; Taheri, Abbas; Wu, Qiuhong; Xie, Xiaofeng

    2018-02-01

    To experimentally investigate the stability of underground excavations under high in situ stress conditions, several rock samples with a mini-tunnel were prepared and subjected to monotonic axial and coupled static-dynamic loading until failure. Mini-tunnels were generated by drilling circular or cubic cavities in the centre of granite rock blocks. Strain gauges were used to monitor the deformation of the mini-tunnels at