Simulation results are used to explain observed experimental results in light of underlying mechanisms. Conditions under which the various physicochemical effects investigated are important are revealed.Reaction-diffusion equations are widely used as the governing evolution equations for modeling many physical, chemical, and biological processes. Here we derive reaction-diffusion equations to model transport with reactions on a one-dimensional domain that is evolving. The model equations, which have been derived from generalized continuous time random walks, can incorporate complexities such as subdiffusive transport and inhomogeneous domain stretching and shrinking. Inhomogeneously growing domains are frequently encountered in biological phenomena involving stochastic transport, such as tumor growth and morphogen gradient formation. A method for constructing analytic expressions for short-time moments of the position of the particles is developed and moments calculated from this approach are shown to compare favorably with results from random walk simulations and numerical integration of the reaction transport equation. The results show the important role played by the initial condition. In particular, it strongly affects the time dependence of the moments in the short-time regime by introducing additional drift and diffusion terms. We also discuss how our reaction transport equation could be applied to study the spreading of a population on an evolving interface. From a more general perspective, our findings help to mitigate the scarcity of analytic results for reaction-diffusion problems in geometries displaying nonuniform growth. They are also expected to pave the way for further results, including the treatment of first-passage problems associated with encounter-controlled reactions in such domains.We carry out Monte Carlo simulations of a colloidal fluid membrane with a free edge and composed of chiral rodlike viruses. The membrane is modeled by a triangular mesh of beads connected by bonds in which the bonds and beads are free to move at each Monte Carlo step. Since the constituent viruses are experimentally observed to twist only near the membrane edge, we use an effective energy that favors a particular sign of the geodesic torsion of the edge. The effective energy also includes the membrane bending stiffness, edge bending stiffness, and edge tension. We find three classes of membrane shapes resulting from the competition of the various terms in the free energy branched shapes, chiral disks, and vesicles. Increasing the edge bending stiffness smooths the membrane edge, leading to correlations among the membrane normals at different points along the edge. The normalized power spectrum for edge displacements shows a peak with increasing preferred geodesic torsion. We also consider membrane shapes under an external force by fixing the distance between two ends of the membrane and finding the shape for increasing values of the distance between the two ends. As the distance increases, the membrane twists into a ribbon, with the force eventually reaching a plateau.The discrete circle map is the archetypical example of a driven periodic system, showing a complex resonance structure under a change of the forcing frequency known as the devil's staircase. https://www.selleckchem.com/products/mk-8719.html Adler's equation can be seen as the direct continuous equivalent of the circle map, describing locking effects in periodic systems with continuous forcing. This type of locking produces a single fundamental resonance tongue without higher-order resonances, and a devil's staircase is not observed. We show that, with harmonically modulated forcing, nonlinear oscillations close to a Hopf bifurcation generically reproduce the devil's staircase even in the continuous case. Experimental results on a semiconductor laser driven by a modulated optical signal show excellent agreement with our theoretical predictions. The locking appears as a modulation of the oscillation amplitude as well as the angular oscillation frequency. Our results show that by proper implementation of an external drive, additional regions of stable frequency locking can be introduced in systems which originally show only a single Adler-type resonance tongue. The induced resonances can be precisely controlled via the modulation parameters.We develop a phenomenological model to describe the structure of radially symmetric paracrystals whose long-range order are destroyed by propagation of particle fluctuations. General expressions are derived for the spatial correlation functions in one-, two-, and three-dimensional spaces. And the spatial correlation in paracrystals in reciprocal space is further discussed and clarified. The developed method can be used to quantitatively analyze the microstructure of paracrystalline materials in both real and reciprocal spaces via scattering experiments and computer simulations.Critical properties of a geometrically frustrated generalized XY model with antiferromagnetic (AFM) and third-order antinematic (AN3) couplings on a triangular lattice are studied by Monte Carlo simulation. It is found that such a generalization leads to a phase diagram consisting of three different quasi-long-range ordered (QLRO) phases. Compared to the model with the second-order antinematic (AN2) coupling, besides the AFM and AN3 phases which appear in the limits of relatively strong AFM and AN3 interactions, respectively, it includes an additional complex canted antiferromagnetic (CAFM) phase. It emerges at lower temperatures, wedged between the AFM and AN3 phases as a result of the competition between the AFM and the AN3 couplings, which is absent in the model with the AN2 coupling. The AFM-CAFM and AN3-CAFM phase transitions are concluded to belong to the weak Ising and weak three-state Potts universality classes, respectively. Additionally, all three QLRO phases also feature true LRO of the standard and generalized chiralities, which both vanish simultaneously at second-order phase transitions with non-Ising critical exponents and the critical temperatures slightly higher than the magnetic and nematic order-disorder transition temperatures.
Simulation results are used to explain observed experimental results in light of underlying mechanisms. Conditions under which the various physicochemical effects investigated are important are revealed.Reaction-diffusion equations are widely used as the governing evolution equations for modeling many physical, chemical, and biological processes. Here we derive reaction-diffusion equations to model transport with reactions on a one-dimensional domain that is evolving. The model equations, which have been derived from generalized continuous time random walks, can incorporate complexities such as subdiffusive transport and inhomogeneous domain stretching and shrinking. Inhomogeneously growing domains are frequently encountered in biological phenomena involving stochastic transport, such as tumor growth and morphogen gradient formation. A method for constructing analytic expressions for short-time moments of the position of the particles is developed and moments calculated from this approach are shown to compare favorably with results from random walk simulations and numerical integration of the reaction transport equation. The results show the important role played by the initial condition. In particular, it strongly affects the time dependence of the moments in the short-time regime by introducing additional drift and diffusion terms. We also discuss how our reaction transport equation could be applied to study the spreading of a population on an evolving interface. From a more general perspective, our findings help to mitigate the scarcity of analytic results for reaction-diffusion problems in geometries displaying nonuniform growth. They are also expected to pave the way for further results, including the treatment of first-passage problems associated with encounter-controlled reactions in such domains.We carry out Monte Carlo simulations of a colloidal fluid membrane with a free edge and composed of chiral rodlike viruses. The membrane is modeled by a triangular mesh of beads connected by bonds in which the bonds and beads are free to move at each Monte Carlo step. Since the constituent viruses are experimentally observed to twist only near the membrane edge, we use an effective energy that favors a particular sign of the geodesic torsion of the edge. The effective energy also includes the membrane bending stiffness, edge bending stiffness, and edge tension. We find three classes of membrane shapes resulting from the competition of the various terms in the free energy branched shapes, chiral disks, and vesicles. Increasing the edge bending stiffness smooths the membrane edge, leading to correlations among the membrane normals at different points along the edge. The normalized power spectrum for edge displacements shows a peak with increasing preferred geodesic torsion. We also consider membrane shapes under an external force by fixing the distance between two ends of the membrane and finding the shape for increasing values of the distance between the two ends. As the distance increases, the membrane twists into a ribbon, with the force eventually reaching a plateau.The discrete circle map is the archetypical example of a driven periodic system, showing a complex resonance structure under a change of the forcing frequency known as the devil's staircase. https://www.selleckchem.com/products/mk-8719.html Adler's equation can be seen as the direct continuous equivalent of the circle map, describing locking effects in periodic systems with continuous forcing. This type of locking produces a single fundamental resonance tongue without higher-order resonances, and a devil's staircase is not observed. We show that, with harmonically modulated forcing, nonlinear oscillations close to a Hopf bifurcation generically reproduce the devil's staircase even in the continuous case. Experimental results on a semiconductor laser driven by a modulated optical signal show excellent agreement with our theoretical predictions. The locking appears as a modulation of the oscillation amplitude as well as the angular oscillation frequency. Our results show that by proper implementation of an external drive, additional regions of stable frequency locking can be introduced in systems which originally show only a single Adler-type resonance tongue. The induced resonances can be precisely controlled via the modulation parameters.We develop a phenomenological model to describe the structure of radially symmetric paracrystals whose long-range order are destroyed by propagation of particle fluctuations. General expressions are derived for the spatial correlation functions in one-, two-, and three-dimensional spaces. And the spatial correlation in paracrystals in reciprocal space is further discussed and clarified. The developed method can be used to quantitatively analyze the microstructure of paracrystalline materials in both real and reciprocal spaces via scattering experiments and computer simulations.Critical properties of a geometrically frustrated generalized XY model with antiferromagnetic (AFM) and third-order antinematic (AN3) couplings on a triangular lattice are studied by Monte Carlo simulation. It is found that such a generalization leads to a phase diagram consisting of three different quasi-long-range ordered (QLRO) phases. Compared to the model with the second-order antinematic (AN2) coupling, besides the AFM and AN3 phases which appear in the limits of relatively strong AFM and AN3 interactions, respectively, it includes an additional complex canted antiferromagnetic (CAFM) phase. It emerges at lower temperatures, wedged between the AFM and AN3 phases as a result of the competition between the AFM and the AN3 couplings, which is absent in the model with the AN2 coupling. The AFM-CAFM and AN3-CAFM phase transitions are concluded to belong to the weak Ising and weak three-state Potts universality classes, respectively. Additionally, all three QLRO phases also feature true LRO of the standard and generalized chiralities, which both vanish simultaneously at second-order phase transitions with non-Ising critical exponents and the critical temperatures slightly higher than the magnetic and nematic order-disorder transition temperatures.
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