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Biomedical subjects

H G Othmer

Publications and source records attributed to H G Othmer.

At least 19 recordsLinked to original sources

A mathematical model for outgrowth and spatial patterning of the vertebrate limb bud.

A new model for limb development which incorporates both outgrowth due to cell growth and division, and interactions between morphogens produced in the zone of polarizing activity (ZPA) and the apical epidermal ridge (AER) is developed and analysed. The numerically-computed spatio-temporal distributions of these morphogens demonstrate the importance of interaction between the organizing regions in establishing the morphogenetic terrain on which cells reside, and because growth is explicitly incorporated, it is found that the history of a cell's exposure to the morphogens depends heavily on where the cell originates in the early limb bud. Because the biochemical steps between morphogen(s) and gene activation have not been elucidated, there is no biologically-based mechanism for translating the spatio-temporal distributions of morphogens into patterns of gene expression, but several theoretically plausible functions that bridge the gap are suggested. For example it is shown that interpretation functions based on the history of a cell's exposure to the morphogens can qualitatively account for observed patterns of gene expression. The mathematical model and the associated computational algorithms are sufficiently flexible that other schemes for the interactions between morphogens, and their effect on the spatio-temporal pattern of growth and gene expression, can easily be tested. Thus an additional result of this work is a computational tool that can be used to explore the effects of various mutations and experimental interventions on the growth of the limb and the pattern of gene expression. In future work we will extend the model to a three-dimensional representation of the limb and will incorporate a more realistic description of the rheological properties of the tissue mass, which here is treated as a Newtonian fluid.

Animals

A continuum analysis of the chemotactic signal seen by Dictyostelium discoideum.

We developed a mathematical model of cell-to-cell-signalling in Dictyostelium discoideum that predicts the cAMP signal seen by individual cells in early aggregation. The model employs two cells on a plane and is designed to predict the space-time characteristics of both the extracellular cAMP signal seen by one cell when a nearby cell relays, and the intracellular cAMP response produced by the stimulus in the receiving cell. The effect of membrane bound phosphodiesterase is studied and it is shown that cells can orient effectively even in its absence. Our results give a detailed picture of how the spatio-temporal characteristics of the extracellular signal can be transduced into a time- and space-dependent intracellular gradient, and they suggest a plausible mechanism for orientation in a natural chemotactic wave.

Animals

A model of excitation and adaptation in bacterial chemotaxis.

Bacterial chemotaxis is widely studied because of its accessibility and because it incorporates processes that are important in a number of sensory systems: signal transduction, excitation, adaptation, and a change in behavior, all in response to stimuli. Quantitative data on the change in behavior are available for this system, and the major biochemical steps in the signal transduction/processing pathway have been identified. We have incorporated recent biochemical data into a mathematical model that can reproduce many of the major features of the intracellular response, including the change in the level of chemotactic proteins to step and ramp stimuli such as those used in experimental protocols. The interaction of the chemotactic proteins with the motor is not modeled, but we can estimate the degree of cooperativity needed to produce the observed gain under the assumption that the chemotactic proteins interact directly with the motor proteins.

Bacterial Physiological Phenomena

A discrete cell model with adaptive signalling for aggregation of Dictyostelium discoideum.

Dictyostelium discoideum (Dd) is a widely studied model system from which fundamental insights into cell movement, chemotaxis, aggregation and pattern formation can be gained. In this system aggregation results from the chemotactic response by dispersed amoebae to a travelling wave of the chemoattractant cAMP. We have developed a model in which the cells are treated as discrete points in a continuum field of the chemoattractant, and transduction of the extracellular cAMP signal into the intracellular signal is based on the G protein model developed by Tang & Othmer. The model reproduces a number of experimental observations and gives further insight into the aggregation process. We investigate different rules for cell movement the factors that influence stream formation the effect on aggregation of noise in the choice of the direction of movement and when spiral waves of chemoattractant and cell density are likely to occur. Our results give new insight into the origin of spiral waves and suggest that streaming is due to a finite amplitude instability.

Animals

Simplification and analysis of models of calcium dynamics based on IP3-sensitive calcium channel kinetics.

We study the models for calcium (Ca) dynamics developed in earlier studies, in each of which the key component is the kinetics of intracellular inositol-1,4,5-trisphosphate-sensitive Ca channels. After rapidly equilibrating steps are eliminated, the channel kinetics in these models are represented by a single differential equation that is linear in the state of the channel. In the reduced kinetic model, the graph of the steady-state fraction of conducting channels as a function of log10(Ca) is a bell-shaped curve. Dynamically, a step increase in inositol-1,4,5-trisphosphate induces an incremental increase in the fraction of conducting channels, whereas a step increase in Ca can either potentiate or inhibit channel activation, depending on the Ca level before and after the increase. The relationships among these models are discussed, and experimental tests to distinguish between them are given. Under certain conditions the models for intracellular calcium dynamics are reduced to the singular perturbed form epsilon dx/d tau = f(x, y, p), dy/d tau = g(x, y, p). Phase-plane analysis is applied to a generic form of these simplified models to show how different types of Ca response, such as excitability, oscillations, and a sustained elevation of Ca, can arise. The generic model can also be used to study frequency encoding of hormonal stimuli, to determine the conditions for stable traveling Ca waves, and to understand the effect of channel properties on the wave speed.

Animals

Excitation, oscillations and wave propagation in a G-protein-based model of signal transduction in Dictyostelium discoideum.

In an earlier paper (Tang & Othmer 1994 Math. Biosci 120, 25-76), we developed a G-protein-based model for signal transduction in the cellular slime mould Dictyostelium discoideum and showed that it can account for the results from perfusion experiments done by Devreotes and coworkers (Devreotes et al. 1979 J. Cell. 80, 300-309; Devreotes & Steck 1979 J. Cell Biol. 80, 300-309; Dinauer et al. 1980 J. Cell Biol. 86, 537-561). The primary experimental observables are the amounts of cAMP secreted and the time scale of adaptation in response to various stimuli, and we showed that the predictions of the model agree well with the observations. Adaptation in the model arises from dual receptor-mediated pathways, one of which produces a stimulatory G protein Gs and the other of which produces an inhibitory G protein Gi. In this paper we use the model to simulate the suspension experiments of Gerisch & Wick (1975 Biochem. biophys. Res. Commun. 65, 364-370) and the experiments done in cell cultures on Petri dishes (Tomchik & Devreotes 1981 Science, Wash. 212, 443-446). The model predicts excitation to cAMP stimuli, sustained oscillations, or spiral waves and target patterns, depending on the developmental stage of the cells and experimental conditions. The interaction between different pacemakers is also studied.

Animals

Frequency encoding in excitable systems with applications to calcium oscillations.

A number of excitable cell types respond to a constant hormonal stimulus with a periodic oscillation in intracellular calcium. The frequency of oscillation is often proportional to the hormonal stimulus, and one says that the stimulus is frequency encoded. Here we develop a theory of frequency encoding in excitable systems and apply it to intracellular calcium oscillations that results from increases in the intracellular level of inositol 1,4,5-triphosphate.

Animals

A G protein-based model of adaptation in Dictyostelium discoideum.

A new model is proposed based on signal transduction via G proteins for adaptation of the signal relay process in the cellular slime mold Dictyostelium discoideum. The kinetic constants involved in the model are estimated from Dictyostelium discoideum and other systems. A qualitative analysis of the model shows how adaptation arises, and numerical computations show that the model agrees with observations in both perfusion and suspension experiments. Several experiments that can serve to test the model are suggested.

Adaptation, Physiological

A model of calcium dynamics in cardiac myocytes based on the kinetics of ryanodine-sensitive calcium channels.

The ryanodine-sensitive calcium channels are pivotal to signal transduction and cell function in many cell types, including cardiac myocytes. In this paper a kinetic model is proposed for these channels. In the model there are two Ca regulatory sites on the channel protein, one positive and the other negative. Cytoplasmic Ca binds to these regulatory sites independently It is assumed that the binding of Ca to the positive site is a much faster process than binding to the negative site. At steady state, the channel opening as a function of the Ca concentration is a bell-shaped curve. The model predicts the adaptation of channels to constant Ca stimulus. When this model is applied to cardiac myocytes, it predicts excitability with respect to Ca perturbations, smoothly graded responses, and Ca oscillations in certain pathological circumstances. In a spatially distributed system, traveling Ca waves in individual myocytes exist under certain conditions. This model can also be applied to other systems where the ryanodine-sensitive channels have been identified.

Adaptation, Physiological

Cyclic AMP oscillations in suspensions of Dictyostelium discoideum.

A model developed previously for signal relay and adaptation in the cellular slime mould Dictyostelium discoideum is shown to account for the observed oscillations of calcium and cyclic AMP in cellular suspensions. A qualitative argument is given which explains how the oscillations arise, and numerical computations show how characteristics such as the period and amplitude of the periodic solutions depend on parameters in the model. Several extensions of the basic model are investigated, including the effect of cell aggregation and the effect of time delays in the activation and adaptation processes. The dynamics of mixed cell populations in which only a small fraction of the cells are capable of autonomous oscillation are also studied.

Adenylyl Cyclases

Pacemakers in aggregation fields of Dictyostelium discoideum: does a single cell suffice?

In this paper we address the following question: can a single cell of the cellular slime mold Dictyostelium discoideum serve as a pacemaker for the aggregation phase? Whether or not this is possible is determined by the relative importance of cyclic AMP production due to self-stimulation as compared to diffusion of cyclic AMP away from the cell and extracellular degradation. We determine the conditions under which a single cell on an infinite place can emit periodic signals of cyclic AMP using a model developed previously for signal relay and adaptation in Dictyostelium. Elsewhere it has been shown that this model provides an accurate representation of the stimulus-response behavior of Dictyostelium for a variety of experimental conditions.

Cell Aggregation

Models of dispersal in biological systems.

In order to provide a general framework within which the dispersal of cells or organisms can be studied, we introduce two stochastic processes that model the major modes of dispersal that are observed in nature. In the first type of movement, which we call the position jump or kangaroo process, the process comprises a sequence of alternating pauses and jumps. The duration of a pause is governed by a waiting time distribution, and the direction and distance traveled during a jump is fixed by the kernel of an integral operator that governs the spatial redistribution. Under certain assumptions concerning the existence of limits as the mean step size goes to zero and the frequency of stepping goes to infinity the process is governed by a diffusion equation, but other partial differential equations may result under different assumptions. The second major type of movement leads to what we call a velocity jump process. In this case the motion consists of a sequence of "runs" separated by reorientations, during which a new velocity is chosen. We show that under certain assumptions this process leads to a damped wave equation called the telegrapher's equation. We derive explicit expressions for the mean squared displacement and other experimentally observable quantities. Several generalizations, including the incorporation of a resting time between movements, are also studied. The available data on the motion of cells and other organisms is reviewed, and it is shown how the analysis of such data within the framework provided here can be carried out.

Cell Movement

Differentiation, cell sorting and proportion regulation in the slug stage of Dictyostelium discoideum.

Recent experimental work suggests that under normal conditions cell sorting plays an important part in maintaining and re-establishing the axial pattern of cell types in the slug stage of the cellular slime mold Dictyostelium discoideum. Following removal of the anterior zone of the slug, anterior-like cells that are normally distributed throughout the posterior of the slug rapidly migrate to the anterior end of the transected slug, and new anterior-like cells appear in the posterior portion. These results provide evidence that the direct linkage between spatial location and differentiation hypothesized in positional information models of spatial pattern formation is not universal. In this paper we develop and analyze a class of mathematical models of the slug in which cell determination can be less rigidly tied to spatial location, and which involve chemotactic cell sorting to re-establish and maintain the spatial pattern of cell types. We show that these models can reproduce the qualitative aspects of the experimental observations and that sorting takes place on the observed time scale when reasonable values of the parameters are used.

Cell Differentiation

Applications of a model for scale-invariant pattern formation in developing systems.

A fundamental problem in developmental biology concerns the proportioning of the developing tissue of a morphallactic system into different cell types in a way that is independent of the overall size of the tissue. The two main models for positional information in pattern formation, the source-sink models and the Turing reaction-diffusion models, have shortcomings that limit their applicability. In a previous paper, we described a model that can produce perfectly scale-invariant spatial patterns and analyzed some of its mathematical properties. In the present paper, we demonstrate some of the shortcomings of the standard reaction-diffusion models and discuss the applicability of our model to developmental systems.

Animals

A continuum model for coupled cells.

A continuum model of diffusion-coupled cells that more accurately reflects the presence of low-permeability gap junctions between cells is analyzed. It is shown by a multi-scale analysis that to lowest order the slow evolution of the mean concentration is described by the usual ordinary differential equations for a discrete model. Furthermore, stable non-uniform steady solutions are shown to exist in the continuum model of a one component system, whereas this is impossible for the standard reaction-diffusion model of this system. It is also shown how to average the equations in this continuum model to obtain a system of reaction-diffusion equations with constant coefficients.

Animals

Scale-invariance in reaction-diffusion models of spatial pattern formation.

We propose a reaction-diffusion model of spatial pattern formation whose solutions can exhibit scale-invariance over any desired range for suitable choices of parameters in the model. The model does not invoke preset polarity or any other ad hoc distinction between cells and provides a solution to the French flag problem without sources at the boundary. Furthermore, patterns other than the polar pattern that usually arises first in a growing one-dimensional system described by Turing's model can be obtained. Evidence is given that suggests that the model may apply in the slug stage of Dictyostelium discoideum.

Cell Differentiation