SEARCH · PubMed Health

Results for “directional diffusion models”

Explore indexed PubMed citations for clinical trials, systematic reviews and public health research. Read source abstracts and follow each citation to its original PubMed record.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 55 records · Page 3Linked to original sources

PubMed1971

Theoretical analysis of net tracer flux due to volume circulation in a membrane with pores of different sizes. Relation to solute drag model.

When osmotic pressure across an artificial membrane, produced by a permeable electrically neutral solute on one side of it, is balanced by an external pressure difference so that there is no net volume flow across the membrane, it has been found that there will be a net flux of a second electrically neutral tracer solute, present at equal concentrations on either side of the membrane, in the direction that the "osmotic" solute diffuses. This has been ascribed to solute-solute interaction or drag between the tracer and the osmotic solutes. An alternative model, presented here, considers the membrane to have pores of different sizes. Under general assumptions, this "heteroporous" model will account for both the direction of net tracer flux and the observed linear dependence of unidirectional tracer fluxes on the concentration of the osmotic solute. The expressions for the fluxes of solutes and solvent are mathematically identical under the two models. An inequality is derived which must be valid if the solute interaction model and/or the heteroporous model can account for the data. If the inequality does not hold, then the heteroporous model alone cannot explain the data. It was found that the inequality holds for most published observations except when dextran is the osmotic solute.

Cell Membrane Permeability↗

PubMed1991

[The application of in vivo diffusion weighted magnetic resonance imaging to intracranial disorders].

We have developed a magnetic resonance (MR) spin echo method to obtain diffusion weighted imaging using motion-probing gradient (MPG) pulses in one or three orthogonal directions before and after a 180 degree pulse. Phantom models containing water and acetone, normal volunteers and patients with brain tumors, brain edema and infarction were examined. Experimental models of brain edema including triethyltin intoxication and cold injuries were also examined in Wistar rats. MRI was performed at a 1.0-T clinical machine or a 4.7-T experimental machine using spin echo pulse sequences with or without additional MPGs on one or three orthogonal axes. The one direction method was useful to define diffusion anisotropy of myelinated axonal fibers in white matter. Faster diffusion was detected in the white matter parallel to the direction of MPGs. On the other hand, slower diffusion was detected perpendicular to the direction of MPGs because the myelin sheath restricted water diffusion. The three orthogonal gradients method was useful to demonstrate the difference in the diffusion coefficients in various diseases due to its larger total gradient strength. The clear distinction between the cytotoxic edema, which revealed slower diffusion, and the vasogenic edema, which revealed faster diffusion, was demonstrated in the experimental models using diffusion weighted image. In the clinical cases, faster diffusion was demonstrated in the brain tumor and perifocal vasogenic edema, which was in agreement with the results in the experimental models of rats. Brain tumors such as low grade astrocytoma with microcysts and perifocal vasogenic edema have very wide extracellular space.(ABSTRACT TRUNCATED AT 250 WORDS)

Animals↗

PubMed1993

An estimate of the rate of direct drug diffusion from the surface of heart and kidney--implications for their representation as compartments.

In many regional pharmacokinetic experiments and models, the anatomical boundaries of the heart and kidney are intrinsically assumed to be barriers for drug diffusion such that these organs can be represented as one or more compartments. To test this, an experimental preparation was developed in which the heart and kidney of anaesthetized sheep were surrounded with 0.9% saline. The rate of drug diffusion from the surface of the organs into the saline was examined during constant-rate i.v. drug infusions. It was found that the maximum clearances of lidocaine and procainamide into the pericardial saline were 10.3-11.6 and 0.6-2.1 ml min-1 respectively, and the values for the kidney were 0.3-0.6, 0.1-1.0 and 0.4-1.3 ml min-1, for lidocaine, procainamide, and meperidine respectively. These corresponded to calculated times of 4-481 min to reach the steady-state saline concentration depending on the drug and the organ. The steady-state ratio of the saline concentrations over the arterial blood drug concentrations usually ranged from 0.5-1.0. It is concluded that drugs can rapidly enter regions of low or no perfusion surrounding these organs, and that the concept of treating the heart and kidney as compartments may not be valid in certain 'worst-case' situations.

Animals↗

PubMed1993

The role of myoglobin in retarding oxygen depletion in skeletal muscle.

Myoglobin retards the development of anoxia in a poorly perfused region of skeletal muscle by facilitating diffusion into this region from adjacent normally perfused regions and by releasing bound oxygen directly into the tissue. We examine these phenomena by analyzing a mathematical model of time-dependent myoglobin-facilitated oxygen transport. The governing equations are solved using similarity transformations and multiple-scale techniques. We find that when perfusion of a region is suddenly decreased, oxygen depletion is significantly retarded by direct release of myoglobin-bound oxygen into the tissue and that myoglobin-facilitated diffusion of oxygen from adjacent regions becomes significant at very low oxygen concentration.

Animals↗

PubMed1995

Investigation of the mechanism of phosphoribosylamine transfer from glutamine phosphoribosylpyrophosphate amidotransferase to glycinamide ribonucleotide synthetase.

Phosphoribosylamine (PRA) is a product of glutamine phosphoribosylpyrophosphate amidotransferase (PRPP-AT) and a substrate for glycinamide ribonucleotide synthetase (GAR-syn), the first two enzymes in the de novo purine biosynthetic pathway. PRA has a half-life of 5 s under physiological conditions, hydrolyzing to ribose 5-phosphate. The instability of this purine precursor brings to question how the efficiency of transfer from one active site to the next is ensured: Is PRA transferred by free diffusion, or is it transferred directly from one enzyme to the next through a process defined as substrate channeling? Kinetic investigations of reactions containing both enzymes monitoring the appearance of the intermediate PRA and/or the product GAR were performed and compared with the predicted kinetics assuming a free diffusion mechanism of transfer. A significant discrepancy exists between the free diffusion model and the experimental data when the ratios of the two enzymes are varied. To accommodate this discrepancy, a direct transfer mechanism is proposed that is facilitated by protein-protein interactions. Experiments to provide evidence for these stable protein-protein interactions including gel chromatography, fluorescence spectroscopy, chemical cross-linking, and affinity gel chromatography; however, have all been unsuccessful. These results suggest that the requisite channeling interaction between PRPP-AT and GAR-syn, which is indicated by the kinetic results, must be a transient one.

Amidophosphoribosyltransferase↗

PubMed1992

The effect of convection on bidirectional peritoneal solute transport: predictions from a distributed model.

A distributed model of the peritoneum has been proposed as an alternative to the standard membrane model for describing peritoneal solute transport. The effect of convection on bidirectional peritoneal solute transport is studied theoretically using the distributed model. Approximate analytical and exact numerical solutions to the distributed model yield predictions similar to those when using a membrane model of peritoneal solute transport. Difficulties in interpretation of the membrane transport parameters may arise, however, when interstitial tissue, not the capillary wall, is the dominant diffusive solute transport resistance. Under such conditions the effect of convection on peritoneal solute transport is dependent on the transport direction. Moreover, predictions from the distributed model are similar to those for a membrane model containing two transport barriers in series. Thus, both the distributed model and a membrane model containing two serial transport barriers equivalently describe the effect of convection on bidirectional peritoneal solute transport.

Animals↗

PubMed1982

Pathology of an experimental extradural spinal T cell tumor.

Syngeneic mice injected intravenously with a T cell tumor line (line 13) induced by Gross' murine leukemia virus developed paraparesis and sensory loss below the midthoracic level 2 to 3 weeks after inoculation. Although signs of systemic disease coexisted, the animals survived through the development of the neurologic symptoms, and treatment with cytotoxic agents was not required. Pathologic study of the spinal cord and brain revealed tumoral infiltration of the meninges, confined to the extradural spaces, more markedly at spinal than cerebral levels. Equally severe infiltrates occurred in the paravertebral musculature. No leptomeningeal or parenchymal involvement was present, irrespective of the severity of the extradural infiltration. Marked bone marrow and visceral infiltration coexisted with central nervous system involvement. The topography of the extradural and muscular tumor cells collections related to the proximity of the involved bone marrow and areas of direct communication between these spaces were repeatedly identified. On the other hand, line 13 cells injected directly into the brain substance produced diffuse leptomeningeal tumoral infiltration without extradural involvement. These findings suggest that the pathogenesis of this model of spinal T cell tumor proliferation involves a first stage of bone marrow infiltration, followed by extradural involvement. This occurs by direct migration of bone marrow tumor cells through gaps in the vertebral bone. This model offers the opportunity for the study of malignancies that produce bone destruction as a mechanism for tumoral spread.

AKR murine leukemia virus↗

PubMed1982

Numerical solution of partial differential equation describing oxygenation rate of the red blood cell.

The non-linear partial differential equation for O2 diffusion was solved numerically in the three-dimensional red cell model by using the alternating-direction implicit method. The oxygenation rate factor of hemoglobin (FS) was assumed to decrease as the O2 saturation (SO2) increases, as given by FS = 2.1 x (1--S)2 (sec-1 . (mmHg)-1). The result obtained was compared with the solutions of the equations derived by Threws and Moll and also with those obtained from the sheet model. The oxygenation rate of the red cell largely depended on the diffusivity across the diffusion barrier around the red cell (eta). When eta = 2.5 x 10(-6) cm . sec-1 . (mmHg)-1 was inserted into the present equation, the numerical solution showed a good correlation with the experimental data. When the sheet model was applied, the eta value obtained from the same experimental data was about twice as great as that obtained in the disc model. One of the characteristic features of the SO2-time curves of the red cell was the decrease in steepness at a high SO2 range, which has been thought to occur due to the decrease in the oxygenation rate of hemoglobin. Therefore, the difference of the actual PO2 in the red cell from the fictitious, so-called "back-pressure" which is evaluated from the O2 dissociation curve through the actual SO2 has been expected to become greater as the SO2 increases. The result obtained from the present equation revealed that the above PO2 difference became as great as 20 mmHg at the maximum point. In the solutions obtained from Thew's and Moll's equations, however, the slope of the SO2-time curve was not significantly reduced at a high SO2 range.

Diffusion↗

PubMed1993

A physiologically based pharmacokinetic model for 2,3,7,8-tetrabromodibenzo-p-dioxin (TBDD) in the rat: tissue distribution and CYP1A induction.

Biologically based models serve as valuable tools for integration of mechanistic pharmacokinetic data by their explicit definition of important determinants of chemical disposition. The objective of the present work was to develop a physiologically based pharmacokinetic model to describe the disposition and enzyme induction properties of 2,3,7,8-tetrabromodibenzo-p-dioxin (TBDD). The TBDD model, which was based on models previously developed for 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD), incorporated: ternary interactions between TBDD, the Ah receptor, and specific DNA-binding sites; induction of a TBDD-binding protein specific to the liver; and diffusion-limited tissue uptake. In the model for TBDD, CYP1A2, which had been measured directly by radioimmunoassay, was assumed to be the hepatic binding protein. The model employed physiologic parameters based on recent data in unanesthetized rats, growing tissue compartments, transluminal excretion of parent TBDD via the gut into the feces, and a separate skin compartment. The model was developed using tissue distribution and excretion data following a single intravenous dose of 1 nmol [3H]TBDD per kilogram. The TBDD model was then used unchanged to analyze several experimental data sets illustrating the time, dose, and route of exposure dependency of TBDD disposition. The model successfully described the dose-dependent tissue distribution of [3H]TBDD following intravenous and oral administration and following a single dermal dose. These studies show that diffusional clearance from blood to tissue was slower for skin than for fat (PAsk approximately 0.1 PAf). When compared with TCDD: (i) TBDD had a higher fat partition coefficient (Pf = 1000 vs 400) and a lower diffusional clearance into fat (PAf = 0.1 vs 0.2) than TCDD; (ii) the binding affinity of CYP1A2 for TBDD was slightly lower than that for TCDD (9.0 vs 6.5 nM); and (iii) TBDD exhibited a slightly greater rate of metabolic elimination (2.0 vs 1.65). Small differences were noted in DNA binding parameters derived for the induction of CYP1A1 and CYP1A2 for TBDD versus TCDD. With minor modifications, the biologically based model for TCDD accurately described the behavior of the brominated congener. The present model, which relied on measured values of CYP1A2 and specified CYP1A2 as the hepatic dioxin binding species, successfully describes the hepatic disposition of TBDD, providing further evidence that CYP1A2 is the primary hepatic binding species in the rat.

Administration, Oral↗

PubMed1993

Transcription-driven site-specific DNA recombination in vitro.

Transcription of a topologically relaxed, circular DNA triggers recombination between two directly repeated res sites by gamma delta resolvase in vitro. This activation of recombination depends on the res site-to-site distance and the orientation of sites with respect to the direction of RNA polymerase tracking. In addition to functioning as a site-specific recombinase, gamma delta resolvase acts as a site-specific topoisomerase and increases the topological linking number of templates during transcription. The data suggest that the link between transcription and recombination could be negative DNA supercoiling that transiently builds up on a relatively short DNA segment in the wake of an advancing RNA polymerase. Surprisingly, transcription-driven recombination is not inhibited by the presence of large amounts of eukaryotic topoisomerase type I, indicating that site-specific recombination can override relaxation by diffusible topoisomerases. This in vitro system might therefore serve as a model for some transcription-directed recombination events observed in vivo.

Animals↗

PubMed1995

Radial packing, order, and disorder in collagen fibrils.

Collagen fibrils resemble smectic, liquid crystals in being highly ordered axially but relatively disordered laterally. In some connective tissues, x-ray diffraction reveals three-dimensional crystallinity in the molecular packing within fibrils, although the continued presence of diffuse scatter indicates significant underlying disorder. In addition, several observations from electron microscopy suggest that the molecular packing is organized concentrically about the fibril core. In the present work, theoretical equatorial x-ray diffraction patterns for a number of models for collagen molecular packing are calculated and compared with the experimental data from tendon fibrils. None of the models suggested previously can account for both the crystalline Bragg peaks and the underlying diffuse scatter. In addition, models in which any of the nearest-neighbor, intermolecular vectors are perpendicular to the radial direction are inconsistent with the observed radial orientation of the principal approximately 4 nm Bragg spacing. Both multiple-start spiral and concentric ring models are devised in which one of the nearest-neighbor vectors is along the radial direction. These models are consistent with the radial orientation of the approximately 4 nm spacing, and energy minimization results in radially oriented crystalline domains separated by disordered grain boundaries. Theoretical x-ray diffraction patterns show a combination of sharp Bragg peaks and underlying diffuse scatter. Close agreement with the observed equatorial diffraction pattern is obtained. The concentric ring model is consistent with the observation that the diameters of collagen fibrils are restricted to discrete values.

Animals↗

PubMed1983

Maximal oxygen consumption and pulmonary diffusing capacity: a direct comparison of physiologic and morphometric measurements in canids.

The purpose of this study was to check the validity of the morphometric model for estimating physiological conductances for gases, DL. We make a direct comparison between the lung's conductance for carbon monoxide, measured physiologically using the single breath method, DLCO (sb), and that measured morphometrically using the previously published model, DLCO(mm). We also make a direct comparison between the maximum rate of oxygen uptake by the lung during exercise, VO2max, and the lung's conductance for oxygen DLO2(mm). We made these measurements on four species of canids (foxes, coyotes, dogs and wolves). We find a direct proportionality between morphometric and physiologic DLCO measurements, the morphometric being consistently larger by a factor of two. We also find that both DLCO and DLO2 increase more steeply with body mass than VO2max, the difference between the allometric slopes being the same as we had found previously in a wide range of mammalian species ranging from 2 g to 700 kg, although the slopes themselves were different. We conclude that the discordant scaling of DLO2 and VO2max with respect to body mass is not an artifact of the model for calculating DLO2 from morphometric data.

Animals↗

PubMed2026

Recovering membrane interaction kinetics of single molecules from 3D tracking data.

Interactions between cytosolic biomolecules and the bacterial inner membrane are fundamental to many cellular processes, yet directly measuring their binding kinetics in living cells remains challenging. Conventional 2D single-molecule tracking analyses can be insufficient, particularly when membrane association does not markedly alter the diffusion rate. Here, we present a method to recover membrane interaction kinetics from 3D single-molecule trajectories in rod-shaped bacteria. Using simulated 3D tracking data, we identify membrane-associated motion by quantifying how well short trajectory segments follow the circular curvature of the cell membrane. The resulting measure is further analyzed using a hidden Markov modeling framework, enabling robust discrimination between cytosolic and membrane-bound states and capturing the dynamics of state transitions without requiring diffusion-rate changes or direct colocalization with membrane markers. This work establishes a general framework for extracting membrane interaction kinetics from 3D single-molecule tracking data in live bacteria and highlights the value of realistic microscopy simulations for quantitative interpretation and systematic bias assessment.

Kinetics↗

PubMed1973

Determinants of time-dependent membrane conductance. The nonrole of classical ion-membrane molecule interactions.

We have examined the steady-state and time-dependent electrical properties of a model membrane system. The model assumes that the directed velocity and energy of ions moving through the membrane are determined by the applied electric field, ionic diffusion forces, and central elastic collisions between ions and membrane molecules. A simple analysis of the steady-state electrical properties of the model yields results identical with ones obtained previously using a more complex analysis procedure. The time-dependent conductance changes of the model in response to a step change in electric field strength when there is solution symmetry display three qualitative patterns dependent on the nature of the ion-membrane molecule interaction. One of the patterns of conductance change is quite similar to that observed in the sodium conductance system of a number of excitable tissues: an initial conductance rise to a maximum (activation) followed by a decay to a final steady-state value (inactivation). However, the correspondence between the time-dependent model behavior and known experimental behavior of excitable systems is only qualitative. We conclude that the classical ion-membrane molecule interactions we consider are not involved in determining time-dependent conductance processes in the excitable systems for which comparison is possible.

Biological Transport↗

PubMed1993

Tri- and diglycine backbone rotational dynamics investigated by 13C NMR multiplet relaxation and molecular dynamics simulations.

Backbone motional dynamics in tri- and diglycine have been investigated by using 13C NMR multiplet relaxation spectroscopy. Dipolar auto- and cross-correlation times were determined as a function of pH, ionic strength, and temperature. Molecular dynamics simulations and phi,psi bond rotation energy profiles were calculated for insight into the physical nature of backbone rotations that could contribute to 13C relaxation. Various motional models were used to fit the experimental data. For internal glycine G2 in triglycine, restricted and unrestricted rotational diffusion models both underestimate internal correlation times, although they do agree that the axis of fastest internal rotation is directed closely along the C alpha-C bond. For di- and triglycine, significant pH dependencies in cross-correlation times for C-terminal glycines, and more so for those of N-terminal glycines, indicate the importance of the ionization state in internal mobility of terminal backbone positions. For terminal glycines, rotational jump models which allow for diffusive-like fluctuations within minima best explain the experimental data. phi,psi rotational fluctuation amplitudes and internal rotational energy barriers derived from the temperature dependence of 13C relaxation parameters, which range from 3 to 5 kcal/mol, agree well with those values calculated in rotational energy profiles.

Amino Acid Sequence↗

PubMed1992

Paracrine control of photomembrane removal.

Photomembrane turnover in vertebrate photoreceptors is regulated by light. Rod outer segments (ROS) shed membrane filled tips at light onset, during the coexistence of two light modulated processes: a dark priming factor and a light induction event. Transduction of these two signals is not direct but appears to involve the neural retina and diffusible paracrine molecules. I propose a model wherein three paracrines control this ROS tip shedding. Melatonin, a lipid soluble dark priming molecule, is synthesized in the dark by all photoreceptor cells, diffusing freely and separating the ROS disk membranes. A second paracrine, dopamine is released from the inner retina whenever light is absorbed by the 502 nm-cones, inhibiting melatonin synthesis. Third, a proposed trophic paracrine, "rostrophin", is released in the dark from internal horizontal cells, and stabilizes the photomembrane. Shedding occurs as rostrophin decreases in the presence melatonin; briefly at light onset or continuously in red or dim white light.

Animals↗

PubMed1991

Determination of glucose diffusion coefficients in biofilms with micro-electrodes.

A glucose micro-electrode was developed for direct measurements inside biofilms, and applied for the determination of effective diffusion coefficients in a model system of agar beads containing immobilized yeast cells. Two methods were used, one based on concentration gradients present at the liquid/solid interface of an active biofilm under steady-state conditions, the other based on the rate of glucose redistribution in an inactivated biofilm under transient-state conditions. Additional measurements with pH and oxygen micro-electrodes were performed and thus allowed for in-situ correction of the glucose electrode signal. From the micro-electrode measurements in the model system it was concluded that the glucose micro-sensor is a useful tool with which to obtain effective diffusion coefficients in biofilms.

Agar↗

PubMed1985

Lithium stimulation of granulopoiesis in diffusion chambers--a model of a humoral, indirect stimulation of stem cell proliferation.

Lithium has been recognized as a stimulator of granulopoiesis both in vivo and in vitro. The mechanism by which lithium provokes this stimulation is unclear, with previous data focusing on such divergent causes as direct effects on progenitor cells v elevations in granulocyte macrophage colony-stimulating activity (GM-CSA) production. In the present study, we used a model system of granulopoiesis in diffusion chambers to study this stimulation of granulopoiesis. Lithium pretreatment of mice followed by a rest period to allow for excretion of the lithium (confirmed by serum assays) revealed a stimulation of progenitor cell growth within the diffusion chambers. No changes in the serum and chamber fluid GM-CSA levels were discernible between the control host mice and the lithium-pretreated mice. These data indicate that lithium stimulates granulopoiesis by an indirect mechanism that does not appear to involve GM-CSA.

Animals↗