Biomedical subjects

E Jakobsson

Publications and source records attributed to E Jakobsson.

At least 37 records · Page 2Linked to original sources

PubMed1997

[Nursing theories--friends or foes? Student nurses' perspective].

Nursing researchers consider nursing theories too theoretical and complicated to apply in practice. In this study student nurses in their last term are being interviewed about their ideas of nursing theories. A lot of different views emerged. The conclusion to make from this study is that a frequent presentation both practical and theoretical is required in order to make theories more accessible to nursing students. It is also important that different kinds of theories are exposed to give the students the possibility to find the theory most suited for the personality. This also gives the student the advantage to choose the essence from each theory. This is a way to establish a natural relationship between students and nursing theories and thereby the students will find easier ways to apply nursing theories in different nursing actions.

Attitude↗

PubMed1996

Solvation, water permeation, and ionic selectivity of a putative model for the pore region of the voltage-gated sodium channel.

This paper describes a molecular dynamics and molecular mechanics study of the solvation and selectivity of the narrow pore and vestibule region of a model-built structure for the voltage-gated sodium channel. The particular structure used was one proposed by Guy and Durell. However, many of the features we saw would likely be shared with other possible models for this channel, such as the one proposed by Lipkind and Fozzard. It was found that the water mobility was reduced in the channel and the water orientations were significantly ordered by the channel environment. Water mobility depended on protein mobility; in a computer experiment in which the protein was artificially frozen, channel water at 300 degrees K was immobilized. Water motions were defined in significant part by a series of discrete moves from one pattern of hydrogen bonding with particular amino acids to another. However, there are so many different hydrogen bonding patterns that a description of the motion in terms of transitions among a small number of discrete states is not appropriate. In the model whose solvation we explored, several charged residues seem to play a particularly significant role in determining solvation and water motions. Based on energy minimization studies, the structure clearly shows selectivity for univalent cations over anions.

Amino Acid Sequence↗

PubMed1996

Computational studies of ion-water flux coupling in the airway epithelium. I. Construction of model.

A mathematical model of ion and water transport across the airway epithelium is presented. The model consists of 12 state variables representing ion concentrations, volumes, and membrane potentials. All osmotically significant membrane transport processes for which there is conclusive experimental evidence are included: passive apical sodium and chloride movement, basolateral sodium-potassium pumping, basolateral sodium-potassium-chloride cotransport, passive basolateral potassium movement, nonselective passive paracellular ion motion, and water transport across all membranes. Ion movements are described by Michaelis-Menten kinetics or by the constant field flux equation. Model parameters are established with Ussing chamber data. Model behavior is validated by comparing in vitro simulations with experimental results. The model accurately reproduces short-circuit chloride and sodium fluxes, short-circuit current, and open-circuit membrane potentials from Ussing chamber data in the secreting and nonsecreting states. The model is then used to describe the behavior of the airway epithelium in vivo, in which case the apical electrolyte compartment is small and of variable size and ionic composition.

Animals↗

PubMed1996

Computational studies of ion-water flux coupling in the airway epithelium. II. Role of specific transport mechanisms.

Ion and water balance by the in vivo airway epithelium was investigated utilizing dynamic computer modeling. Parameters of the osmotically significant transport processes were varied to assess the sensitivity of water transport and fluid composition to transport perturbations. Establishment and regulation of water secretion represent a coordinated function of at least seven different ion transport processes: basolateral passive potassium transport, basolateral active sodium-potassium transport, basolateral sodium-potassium-chloride cotransport, apical passive sodium and chloride transport, and diffusion of sodium and chloride across the paracellular path. We found that apical chloride permeability at a level reported for cystic fibrosis is sufficient to cause the airway dehydration characteristic of cystic fibrosis. Given the reduction in apical chloride permeability in cystic fibrosis, a reduction in apical sodium permeability can potentially compensate completely for the airway dehydration associated with the cystic fibrosis genetic defect. Other simulations presented here address the importance of various membrane transport processes in airway epithelium water balance and the sensitivity of epithelium water balance to ion transport perturbations.

Animals↗

PubMed1995

Liquid-gel partitioning using Lipidex in the determination of polychlorinated biphenyls, naphthalenes, dibenzo-p-dioxins and dibenzofurans in blood plasma.

A method was developed for the transfer of fat, polychlorinated biphenyls (PCBs), naphthalenes (PCNs), dibenzo-p-dioxins (PCDDs) and dibenzofurans (PCDFs) from blood plasma into the lipophilic gel Lipidex 5000. Subsequent elution of the gel separated about 70% of the fat from the analytes. Different adsorbents and activated charcoal were applied for further purification of the sample and separation of analytes. Identification and determination of the chlorinated compounds were made by gas chromatography with electron-capture detection (GC-ECD) or gas chromatography-mass spectrometry (GC-MS). Recoveries were studied by addition of Halowax 1014 and different congeners of PCBs, PCNs, PCDDs and PCDFs to 50 ml of plasma. The mean recoveries of the individual compounds studied were 72-99%. By using the liquid-gel partitioning technique emulsions were avoided. Concentrations of lipids in plasma obtained by the present method agreed well with the concentrations obtained using liquid-liquid partitioning with chloroform-methanol.

Adipose Tissue↗

PubMed1995

Incorporation of surface tension into molecular dynamics simulation of an interface: a fluid phase lipid bilayer membrane.

In this paper we report on the molecular dynamics simulation of a fluid phase hydrated dimyristoylphosphatidylcholine bilayer. The initial configuration of the lipid was the x-ray crystal structure. A distinctive feature of this simulation is that, upon heating the system, the fluid phase emerged from parameters, initial conditions, and boundary conditions determined independently of the collective properties of the fluid phase. The initial conditions did not include chain disorder characteristic of the fluid phase. The partial charges on the lipids were determined by ab initio self-consistent field calculations and required no adjustment to produce a fluid phase. The boundary conditions were constant pressure and temperature. Thus the membrane was not explicitly required to assume an area/phospholipid molecule thought to be characteristic of the fluid phase, as is the case in constant volume simulations. Normal to the membrane plane, the pressure was 1 atmosphere, corresponding to the normal laboratory situation. Parallel to the membrane plane a negative pressure of -100 atmospheres was applied, derived from the measured surface tension of a monolayer at an air-water interface. The measured features of the computed membrane are generally in close agreement with experiment. Our results confirm the concept that, for appropriately matched temperature and surface pressure, a monolayer is a close approximation to one-half of a bilayer. Our results suggest that the surface area per phospholipid molecule for fluid phosphatidylcholine bilayer membranes is smaller than has generally been assumed in computational studies at constant volume. Our results confirm that the basis of the measured dipole potential is primarily water orientations and also suggest the presence of potential barriers for the movement of positive charges across the water-headgroup interfacial region of the phospholipid.

Crystallography, X-Ray↗

PubMed1994

Gas chromatographic retention behaviour of polychlorinated naphthalenes on non-polar, polarizable, polar and smectic capillary columns.

Six commercially available gas chromatography columns were investigated for performance in separating polychlorinated naphthalenes (PCNs). Retention behaviour on the investigated phases is compared and retention data for 40 congeners on a 5% phenyl-methylpolysiloxane column is reported. For all columns, except the octylmethylpolysiloxane and the smectic, a relation between substitution pattern and retention was found, where substitution in adjacent positions as well as alpha-substitution increase the retention time. A mathematical model based on these findings was developed and used to predict the relative retention of all congeners from di- up to octachloronaphthalene, on a 5% phenyl-methylpolysiloxane column.

Chromatography, Gas↗

PubMed1994

Ethoxyresorufin O-deethylase (EROD) and aryl hydrocarbon hydroxylase (AHH)-inducing potency and lethality of chlorinated naphthalenes in chicken (Gallus domesticus) and eider duck (Somateria mollissima) embryos.

The 7-ethoxyresorufin O-deethylase (EROD)- and aryl hydrocarbon hydroxylase (AHH)-inducing potencies and lethalities of a technical preparation of polychlorinated naphthalenes (PCNs) (Halowax 1014, approximate congener ratio: 20% tetrachloronaphthalenes, 40% pentachloronaphthalenes, 40% hexachloronaphthalenes), a mixture of 50% 1,2,3,5,6,7-hexachloronaphthalene and 50% 1,2,3,4,6,7-hexachloronaphthalene (HxCN-mix), and 1,2,3,4,5,6,7-heptachloronaphthalene (HpCN) were studied in chicken (Gallus domesticus) and eider duck (Somateria mollissima) embryos. Mortality and hepatic EROD activity were determined on day 10 of incubation in chicken embryos exposed to various doses of the PCNs via the air-sacs of the eggs on day 7. The HxCN-mix and Halowax 1014 proved to have both embryolethal and EROD-inducing properties, while the HpCN had low EROD-inducing potency and embryolethality. ED50 values for EROD induction by the HxCN-mix and Halowax 1014 were estimated to be 0.06 mg/kg egg and 0.2 mg/kg egg, respectively. Fifty percent of the chicken embryos died (6/12) when given 3.0 mg/kg of the HxCN-mix while a similar dose of Halowax 1014 caused mortality in 4 out of 12 chicken embryos. The dose-response curve for EROD induction by Halowax 1014 exhibited a decline after the maximal level was reached. When Halowax 1014 (1.0 mg/kg egg) was coinjected with 3,3',4,4',5-pentachlorobiphenyl (PCB IUPAC #126) (0.1 microgram/kg egg) no additive effects on EROD activity were found, but when the same dose of Halowax 1014 was coinjected with a dose of PCB #126, known to cause maximal induction (1.0 microgram/kg egg), the resulting EROD activity was lower than that caused solely by 1.0 micrograms PCB #126/kg egg.(ABSTRACT TRUNCATED AT 250 WORDS)

Animals↗

PubMed1994

Brownian dynamics study of a multiply-occupied cation channel: application to understanding permeation in potassium channels.

The behavior of a multiply-occupied cation-selective channel has been computed by Brownian dynamics. The length, cross-section, ion-ion repulsion force, and ionic mobility within the channel are all estimated from data and physical reasoning. The only free parameter is a partition energy at the mouth of the channel, defining the free energy of an ion in the channel compared to the bath. It is presumed that this partition energy is associated with the energetics of exchanging a bulk hydration environment for a channel hydration environment. Varying the partition energy alone, keeping all other parameters fixed, gives approximately the full range of magnitudes of single channel conductances seen experimentally for K channels. Setting the partition energy at -11 kT makes the computed channel look similar to a squid axon K channel with respect to magnitude of conductance, shape of the I-V curve, non-unity of Ussing flux ratio exponents, decrease of current and increase of conductance with extracellular ion accumulation, and saturation at high ion concentration in the bathing solution. The model includes no preferred binding sites (local free energy minima) for ions in the channel. Therefore it follows that none of the above-mentioned properties of K channels are strong evidence for the existence of such sites. The model does not show supersaturation of current at very high bathing concentrations nor any pronounced voltage-dependence of the Ussing flux ratio exponent, suggesting that these features would require additional details not included in the model presented herein.

Animals↗

PubMed1993

Functional significance of the A-current.

This work considers the response to simulated synaptic inputs of an excitable membrane model. The model is essentially of the Hodgkin-Huxley type, but contains an A-current in addition to sodium and delayed-rectifier potassium channels. The results were compared with previous simulations in which the stimulus was an injected current. These two types of stimuli give somewhat different results because synaptic stimuli directly change the membrane resistance, whereas injected current does not. The results of synaptic stimulation were similar to injected current in that very low frequencies of action potentials were elicited only where the stimulus was slightly above threshold. For most of the range of synaptic inputs that produced oscillatory behavior, the A-current had little effect on oscillation frequency. With synaptic stimuli as with injected current, the model membrane's spiking behavior does not begin immediately when an excitatory stimulus is imposed on a quiescent state. The delay before spiking is closely related to the inactivation time of the A-current. The synaptic results were different from the injected current results in that when substantial inhibition was present, the ability to produce very-low-frequency spiking was absent, even just above the excitatory threshold. The higher the degree of inhibition, the narrower the range of spike frequencies that could be elicited by excitation. At very high inhibition, no degree of excitation could elicit spiking.

Action Potentials↗

PubMed1993

The nature of ion and water barrier crossings in a simulated ion channel.

Using a combination of techniques, including molecular dynamics, time-correlation analysis, stochastic dynamics, and fitting of continuum diffusion theory to electrophysiological data, a characterization is made of thermally driven sodium, water, and D2O motion within the gramicidin A channel. Since the channel contents are constrained to move in a single-file fashion, the motion that corresponds to experimentally measurable rates of permeation of the membrane is the motion of the center of mass of the channel contents. We therefore emphasize channel contents center-of-mass motion in our analysis of molecular dynamics computations. The usual free energy calculation techniques would be of questionable validity when applied to such motion. As an alternative to those techniques, we postulate a periodic sinusoidal free energy profile (related to the periodic structure of the helical channel) and deduce the fluid dynamic diffusion coefficient and the height and spacing of the free energy barriers from the form of the mean-square-deviation function, using stochastic computations. The fluid dynamic friction in each case appears similar to that for aqueous solution. However, the diffusive motions are modulated by a spatially periodic free energy profile with a periodicity characteristic of an L-D pair of amino acids in the gramicidin helix, approximately 1.7 A in the model we use. The barrier height depends on which substance is moving in the channel, but in each case is several times thermal energy. For barriers of this width and height, the motion is intermediate between the low-friction (transition-state) and high-friction (Brownian) limits. Thus, neither of these formalisms that have been used commonly to describe membrane permeation gives an accurate picture of the underlying physical process (although the Brownian description seems closer to correct). The non-Markovian Langevin equation must be solved to describe properly the statistics of the process. The "channel state of matter" characteristic of the channel contents appears to have some properties typical of the solid and some typical of the liquid state. The magnitude of the local friction and nature of the ion solvation are similar to the liquid state, but the periodicities of structure, free energy, and dynamics are somewhat solid-like. The alignment of water dipoles in the channel bears some resemblance to the orientational ordering of a nematic liquid crystal, but unlike a nematic liquid crystal, the waters have a degree of translational order as well. Thus, the "channel state" is not adequately described by analogy to either the solid or liquid states or to liquid crystals but must be dealt with as its own characteristic type of condensed matter.

Biological Transport, Active↗

PubMed1991

Possible dual effect of synapses that are putatively purely excitatory or purely inhibitory: bases in stability theory and implications for neural network behavior.

Depolarization of an excitable membrane has a dual effect; excitatory in that it causes rapid opening of calcium and/or sodium channels but inhibitory in that it also causes those channels to inactivate. We considered whether apparently paradoxical or dual behavior might be exhibited by excitatory and inhibitory synaptic inputs. We used the classic Hodgkin-Huxley model for voltage-gated channels plus leakage channels of appropriate selectivity for ligand-gated postsynaptic channels. We summarize a model cell's behavior by calculating elicited firing frequency as a function of reversal potential and conductance of summed synaptic inputs, using stability theory and direct simulations. Dual behavior is elicited in the model with reasonable densities of ligand-gated channels. Thus a particular synaptic input to a neuron may be either excitatory or inhibitory depending on simultaneous activity of other synaptic inputs to the cell. This input-output map may give rise to biologically realistic and rich behaviors as an element of computed neural networks, and still be computationally tractable.

Animals↗

PubMed1991

Time-correlation analysis of simulated water motion in flexible and rigid gramicidin channels.

Molecular dynamics simulations have been done on a system consisting of the polypeptide membrane channel former gramicidin, plus water molecules in the channel and caps of waters at the two ends of the channel. In the absence of explicit simulation of the surrounding membrane, the helical form of the channel was maintained by artificial restraints on the peptide motion. The characteristic time constant of the artificial restraint was varied to assess the effect of the restraints on the channel structure and water motions. Time-correlation analysis was done on the motions of individual channel waters and on the motions of the center of mass of the channel waters. It is found that individual water molecules confined in the channel execute higher frequency motions than bulk water, for all degrees of channel peptide restraint. The center-of-mass motion of the chain of channel waters (which is the motion that is critical for transmembrane transport, due to the mandatory single filing of water in the channel) does not exhibit these higher frequency motions. The mobility of the water chain is dramatically reduced by holding the channel rigid. Thus permeation through the channel is not like flow through a rigid pipe; rather permeation is facilitated by peptide motion. For the looser restraints we used, the mobility of the water chain was not very much affected by the degree of restraint. Depending on which set of experiments is considered, the computed mobility of our water chain in the flexible channel is four to twenty times too high to account for the experimentally measured resistance of the gramicidin channel to water flow. From this result it appears likely that the peptide motions of an actual gramicidin channel embedded in a lipid membrane may be more restrained than in our flexible channel model, and that these restraints may be a significant modulator of channel permeability. For the completely rigid channel model the "trapping" of the water molecules in preferred positions throughout the molecular dynamics run precludes a reasonable assessment of mobility, but it seems to be quite low.

Gramicidin↗

PubMed1991

Molecular dynamics computations and solid state nuclear magnetic resonance of the gramicidin cation channel.

This paper reports on a coupled approach to determining the structure of the gramicidin A ion channel, utilizing solid state nuclear magnetic resonance (NMR) of isotopically labeled gramicidin channels aligned parallel to the magnetic field direction, and molecular dynamics (MD). MD computations using an idealized right-handed beta-helix as a starting point produce a refined molecular structure that is in excellent agreement with atomic resolution solid state NMR data. The data provided by NMR and MD are complementary to each other. When applied in a coordinated manner they provide a powerful approach to structure determination in molecular systems not readily amenable to x-ray diffraction.

Amino Acid Sequence↗

PubMed1990

Physiological effects in fish exposed to effluents from mills with six different bleaching processes.

Immature rainbow trout (Salmo gairdneri R.) were continuously exposed in a flow-through system to a total of six different bleached kraft mill effluents (BKME) at two exposure concentrations (400 and 2000 times dilution) for 7 weeks, during three consecutive years (1982-1984). The fish were exposed in outdoor tanks connected to the outgoing water from a parallel mesocosms study simulating the Baltic littoral (Fucus vesiculosus) zone. After exposure, hematological, osmoregulational) and mixed function oxidase (MFO) parameters were studied. The results showed that conventional choline bleaching (C95 + D5)EHDED, with and without treatment in aerated lagoons, had the strongest effects on the fish exposed. Oxygen prebleaching followed by high (50%) substitution of the active chlorine as chlorine dioxide, as well as oxygen prebleaching and normal (85%) chlorine levels in the CD step and treatment in aerated lagoons, had the fewest effects on the fish. The results imply a complex pattern of effects where the relative prevalence of MFO-stimulating and -inhibiting substances may give different biological results in fish exposed to these kinds of effluents.

Animals↗

PubMed1990

Calculation of deformation energies and conformations in lipid membranes containing gramicidin channels.

In this paper we calculate surface conformation and deformation free energy associated with the incorporation of gramicidin channels into phospholipid bilayer membranes. Two types of membranes are considered. One is a relatively thin solvent-free membrane. The other is a thicker solvent-containing membrane. We follow the approach used for the thin membrane case by Huang (1986) in that we use smectic liquid crystal theory to evaluate the free energy associated with distorting the membrane to other than a flat configuration. Our approach is different from Huang, however, in two ways. One is that we include a term for surface tension, which Huang did not. The second is that one of our four boundary conditions for solving the fourth-order differential equation describing the free energy of the surface is different from Huang's. The details of the difference are described in the text. Our results confirm that for thin membranes Huang's neglect of surface tension is appropriate. However, the precise geometrical form that we calculate for the surface of the thin membrane in the region of the gramicidin channel is somewhat different from his. For thicker membranes that have to deform to a greater extent to accommodate the channel, we find that the contribution of surface tension to the total energy in the deformed surface is significant. Computed results for the shape of the deformed surface, the total energy in the deformed surface, and the contributions of different components to the total energy, are presented for the two types of membranes considered. These results may be significant for understanding the mechanisms of dimer formation and breakup, and the access resistance for ions entering gramicidin channels.

Glycerides↗

PubMed1989

Water and polypeptide conformations in the gramicidin channel. A molecular dynamics study.

Theoretical studies of ion channels address several important questions. The mechanism of ion transport, the role of water structure, the fluctuations of the protein channel itself, and the influence of structural changes are accessible from these studies. In this paper, we have carried out a 70-ps molecular dynamics simulation on a model structure of gramicidin A with channel waters. The backbone of the protein has been analyzed with respect to the orientation of the carbonyl and the amide groups. The results are in conformity with the experimental NMR data. The structure of water and the hydrogen bonding network are also investigated. It is found that the water molecules inside the channel act as a collective chain; whereas the conformation in which all the waters are oriented with the dipoles pointing along the axis of the channel is a preferred one, others are also accessed during the dynamics simulation. A collective coordinate involving the channel waters and some of the hydrogen bonding peptide partners is required to describe the transition of waters from one configuration to the other.

Gramicidin↗

PubMed1989

Stochastic theory of singly occupied ion channels. II. Effects of access resistance and potential gradients extending into the bath.

In a previous paper (Jakobsson, E., and S. W. Chiu. 1987. Biophys. J. 52:33-46), we presented the stochastic theory of the singly occupied ion channel as applied to sodium permeation of gramicidin channels, with the assumption of perfect equilibration between the bathing solutions and the ends of the ion channel. In the present paper we couple the previous theory to electrodiffusion of ions from the bulk of the bathing solution to the channel mouth. Our electrodiffusion calculations incorporate estimates of the potential gradients near the channel mouth due to image forces and due to the fraction of the applied potential that falls beyond the ends of the channel. To keep the diffusion calculation one-dimensional, we make the assumption that the electrical potentials in the bath exhibit hemispherical symmetry. As in the previous paper, the flux equations are fit to data on sodium permeation of normal gramicidin A, and gramicidins modified by the fluorination of the valine at the No. 1 position (Barrett Russell, E. W., L. B. Weiss, F. I. Navetta, R. E. Koeppe II, and O. S. Anderson. 1986. Biophys. J. 49:673-686). The conclusions of our previous paper with respect to the effect of fluorination on the mobility, surface potential well depth, and central barrier, are confirmed. However the absolute values of these quantities are somewhat changed when diffusive resistance to the mouth is taken into account, as in the present paper. Future possibilities for more accurate calculations by other methods are outlined.

Electric Conductivity↗