Biomedical subjects

Uwe C Täuber

Publications and source records attributed to Uwe C Täuber.

9 recordsLinked to original sources

PubMed2006

Fluctuations and correlations in lattice models for predator-prey interaction.

Including spatial structure and stochastic noise invalidates the classical Lotka-Volterra picture of stable regular population cycles emerging in models for predator-prey interactions. Growth-limiting terms for the prey induce a continuous extinction threshold for the predator population whose critical properties are in the directed percolation universality class. We discuss the robustness of this scenario by considering an ecologically inspired stochastic lattice predator-prey model variant where the predation process includes next-nearest-neighbor interactions. We find that the corresponding stochastic model reproduces the above scenario in dimensions 1< d < or =4, in contrast with the mean-field theory, which predicts a first-order phase transition. However, the mean-field features are recovered upon allowing for nearest-neighbor particle exchange processes, provided these are sufficiently fast.

Adaptation, Physiological↗

PubMed2005

Effects of receptor clustering on ligand dissociation kinetics: theory and simulations.

Receptor-ligand binding is a critical first step in signal transduction and the duration of the interaction can impact signal generation. In mammalian cells, clustering of receptors may be facilitated by heterogeneous zones of lipids, known as lipid rafts. In vitro experiments show that disruption of rafts significantly alters the dissociation of fibroblast growth factor-2 (FGF-2) from heparan sulfate proteoglycans (HSPGs), co-receptors for FGF-2. In this article, we develop a continuum stochastic formalism to address how receptor clustering might influence ligand rebinding. We find that clusters reduce the effective dissociation rate dramatically when the clusters are dense and the overall surface density of receptors is low. The effect is much less pronounced in the case of high receptor density and shows nonmonotonic behavior with time. These predictions are verified via lattice Monte Carlo simulations. Comparison with FGF-2-HSPG experimental results is made and suggests that the theory could be used to analyze similar biological systems. We further present an analysis of an additional cooperative internal-diffusion model that might be used by other systems to increase ligand retention when simple rebinding is insufficient.

Binding Sites↗

PubMed2005

Ligand rebinding: self-consistent mean-field theory and numerical simulations applied to surface plasmon resonance studies.

Rebinding of dissociated ligands from cell surface proteins can confound quantitative measurements of dissociation rates important for characterizing the affinity of binding interactions. This can be true also for in vitro techniques such as surface plasmon resonance (SPR). We present experimental results using SPR for the interaction of insulin-like growth factor-I (IGF-I) with one of its binding proteins, IGF binding protein-3 (IGFBP-3), and show that the dissociation, even with the addition of soluble heparin in the dissociation phase, does not exhibit the expected exponential decay characteristic of a 1:1 binding reaction. We thus consider the effect of (multiple) rebinding events and, within a self-consistent mean-field approximation, we derive the complete mathematical form for the fraction of bound ligands as a function of time. We show that, except for very low association rate and surface coverage, this function is nonexponential at all times, indicating that multiple rebinding events strongly influence dissociation even at early times. We compare the mean-field results with numerical simulations and find good agreement, although deviations are measurable in certain cases. Our analysis of the IGF-I-IGFBP-3 data indicates that rebinding is prominent for this system and that the theoretical predictions fit the experimental data well. Our results provide a means for analyzing SPR biosensor data where rebinding is problematic and a methodology to do so is presented.

Binding Sites↗

PubMed2004

Pair contact process with diffusion: failure of master equation field theory.

We demonstrate that the "microscopic" field theory representation, directly derived from the corresponding master equation, fails to adequately capture the continuous nonequilibrium phase transition of the pair contact process with diffusion (PCPD). The ensuing renormalization group (RG) flow equations do not allow for a stable fixed point in the parameter region that is accessible by the physical initial conditions. There exists a stable RG fixed point outside this regime, but the resulting scaling exponents, in conjunction with the predicted particle anticorrelations at the critical point, would be in contradiction with the positivity of the equal-time mean-square particle number fluctuations. We conclude that a more coarse-grained effective field theory approach is required to elucidate the critical properties of the PCPD.

Journal Article↗

PubMed2004

Nonequilibrium critical dynamics of the relaxational models C and D.

We investigate the critical dynamics of the n-component relaxational models C and D, which incorporate the coupling of a nonconserved and conserved order parameter S, respectively, to the conserved energy density rho, under nonequilibrium conditions by means of the dynamical renormalization group. Detailed balance violations can be implemented isotropically by allowing for different effective temperatures for the heat baths coupling to the slow modes. In the case of model D with conserved order parameter, the energy density fluctuations can be integrated out, leaving no trace of the nonequilibrium perturbations in the asymptotic regime. For model C with scalar order parameter, in equilibrium governed by strong dynamic scaling (z(S)=z(rho)), we find no genuine nonequilibrium fixed point either. The nonequilibrium critical dynamics of model C with n=1 thus follows the behavior of other systems with nonconserved order parameter wherein detailed balance becomes effectively restored at the phase transition. For n> or =4, the energy density generally decouples from the order parameter. However, for n=2 and n=3, in the weak dynamic scaling regime (z(S)< or =z(rho)) entire lines of genuine nonequilibrium model C fixed points emerge to one-loop order, which are characterized by continuously varying static and dynamic critical exponents. Similarly, the nonequilibrium model C with spatially anisotropic noise and n<4 allows for continuously varying exponents, yet with strong dynamic scaling. Subjecting model D to anisotropic nonequilibrium perturbations leads to genuinely different critical behavior with softening only in subsectors of momentum space and correspondingly anisotropic scaling exponents. Similar to the two-temperature model B (randomly driven diffusive systems) the effective theory at criticality can be cast into an equilibrium model D dynamics, albeit incorporating long-range interactions of the uniaxial dipolar or ferroelastic type.

Journal Article↗

PubMed2004

Ligand-induced coupling versus receptor pre-association: cellular automaton simulations of FGF-2 binding.

The binding of basic fibroblast growth factor (FGF-2) to its cell surface receptor (CSR) and subsequent signal transduction is known to be enhanced by heparan sulfate proteoglycans (HSPGs). HSPGs bind FGF-2 with low affinity and likely impact CSR-mediated signaling via stabilization of FGF-2-CSR complexes via association with both the ligand and the receptor. What is unknown is whether HSPG associates with CSR in the absence of FGF-2. In this paper, we determine conditions by which pre-association would impact CSR-FGF-2-HSPG triad formation assuming diffusion-limited surface reactions. Using mean-field rate equations, we show that (i) when [HSPG] is much higher than [CSR], the presence of pre-formed complexes does not affect the steady state of FGF-2 binding, and (ii) when the concentrations are comparable, the presence of pre-formed complexes substantially increases the steady-state concentration of FGF-2 bound to CSR. These findings are supported by explicit cellular automaton simulations, which justify the mean-field treatment. We discuss the advantages of such a two-receptor system compared to a single-receptor model, when the parameters are comparable. Further, we speculate that the observed high concentration of HSPG in intact cells ([HSPG]-100[CSR]) provides a way to ensure that the binding levels of FGF-2 to its signaling receptor remains high, irrespective of the presence of pre-formed CSR-HSPG complexes on the cell surface, while allowing the cell to finely tune the response to FGF-2 via down-regulation of the signaling receptor.

Cell Physiological Phenomena↗

PubMed2003

Reaction-controlled diffusion: Monte Carlo simulations.

We study the coupled two-species nonequilibrium reaction-controlled diffusion model introduced by Trimper et al. [Phys. Rev. E 62, 6071 (2000)] by means of detailed Monte Carlo simulations in one and two dimensions. Particles of type A may independently hop to an adjacent lattice site, provided it is occupied by at least one B particle. The B particle species undergoes diffusion-limited reactions. In an active state with nonzero, essentially homogeneous B particle saturation density, the A species displays normal diffusion. In an inactive, absorbing phase with exponentially decaying B density, the A particles become localized. In situations with algebraic decay rho(B)(t) approximately t(-alpha(B)), as occurring either at a nonequilibrium continuous phase transition separating active and absorbing states, or in a power-law inactive phase, the A particles propagate subdiffusively with mean-square displacement (t)(2)(A)> approximately t(1-alpha(A)). We find that within the accuracy of our simulation data, alpha(A) approximately alpha(B) as predicted by a simple mean-field approach. This remains true even in the presence of strong spatiotemporal fluctuations of the B density. However, in contrast with the mean-field results, our data yield a distinctly non-Gaussian A particle displacement distribution n(A)(x-->,t) that obeys dynamic scaling and looks remarkably similar for the different processes investigated here. Fluctuations of effective diffusion rates cause a marked enhancement of n(A)(x-->,t) at low displacements /x-->/, indicating a considerable fraction of practically localized A particles, as well as at large traversed distances.

Journal Article↗

PubMed2002

Multispecies pair annihilation reactions.

We consider diffusion-limited reactions A(i)+A(j)--> (1< or =i 2 and d> or =2, we argue that the asymptotic density decay for such mutual annihilation processes with equal rates and initial densities is the same as for single-species pair annihilation A+A-->. In d=1, however, particle segregation occurs for all q< infinity. The total density decays according to a q dependent power law, rho(t) approximately t(-alpha(q)). Within a simplified version of the model alpha(q)=(q-1)/2q can be determined exactly. Our findings are supported through Monte Carlo simulations.

Biology↗

PubMed2002

Effects of violating detailed balance on critical dynamics.

We present an overview of the effects of detailed-balance violating perturbations on the universal static and dynamic scaling behavior near a critical point. It is demonstrated that the standard critical dynamics universality classes are generally quite robust: In systems with nonconserved order parameter, detailed balance is effectively restored at criticality. This also holds for models with conserved order parameter, and isotropic nonequilibrium perturbations. Genuinely novel features are found only for models with conserved order parameter and spatially anisotropic noise correlations.

Journal Article↗