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At least 397 records · Page 22

Structural Model for the Flip-Flop Action in Thiamin Pyrophosphate-Dependent Human Pyruvate Dehydrogenase

The derivative of vitamin B1 thiamin pyrophosphate (TPP) is a cofactor of enzymes performing catalysis in pathways of energy production, including (i) decarboxylation of alpha-keto acids followed by (ii) transketolation. These enzymes have shown a common mechanism of TPP activation by imposing an active V-conformation of this coenzyme that brings the N4 atom of the aminopyrimidine ring to the distance required for the intramolecular C-H N hydrogen-bonding with the C2- atom of the thiazolium ring. The reactive C2 atom of TPP is the nucleophile that attacks the carbonyl carbon of different substrates used by the TPP-dependent enzymes. The structure of the heterotetrameric human pyruvate dehydrogenase (Elp) recently determined in our laboratory (1) revealed the association pattern of the subunits and the specifics of two chemically equivalent cofactor binding sites. Dynamic nonequivalence of these two cofactor sites directs the flip-flop action of this enzyme, depending upon which two active sites effect each other (2). The crystal structure derived from the holo-form of Elp provided the basis for the model of the flip-flop action of Elp in which different steps of the catalytic reaction are performed in each of the two cofactor sites at any given moment, where these steps are governed by the concerted shuttle-like motion of the subunits. It is further proposed that balancing a hydrogen-bond network and related cofactor geometry determine the continuity of catalytic events.

Ciszak, Ewa↗

Current sheet Formation in a Conical Theta Pinch Faraday Accelerator with Radio-Frequency Assisted Discharge

The inductive formation of current sheets in a conical theta pinch FARAD (Faraday Accelerator with Radio-frequency Assisted Discharge) thruster is investigated experimentally with time-integrated photography. The goal is to help in understanding the mechanisms and conditions controlling the strength and extent of the current sheet, which are two indices important for FARAD as a propulsion concept. The profiles of these two indices along the inside walls of the conical acceleration coil are assumed to be related to the profiles of the strength and extent of the luminosity pattern derived from photographs of the discharge. The variations of these profiles as a function of uniform back-fill neutral pressure (with no background magnetic field and all parameters held constant) provided the first clues on the nature and qualitative dependencies of current sheet formation. It was found that there is an optimal pressure for which both indices reach a maximum and that the rate of change in these indices with pressure differs on either side of this optimal pressure. This allowed the inference that current sheet formation follows a Townsend-like breakdown mechanism modified by the existence of a finite pressure-dependent radio-frequency-generated electron density background. The observation that the effective location of the luminosity pattern favors the exit-half of the conical coil is explained as the result of the tendency of the inductive discharge circuit to operate near its minimal self-inductance. Movement of the peak in the luminosity pattern towards the upstream side of the cone with increasing pressure is believed to result from the need of the circuit to compensate for the increase in background plasma resistivity due to increasing pressure.

Hallock, Ashley K.↗

Patches in the polar ionosphere: UT and seasonal dependence

The seasonal and Universal Time (UT) dependencies of patches in the polar ionosphere are simulated using the Utah State University time dependent ionospheric model (TDIM). Patch formation is achieved by changing the plasma convection pattern in response to temporal changes in the interplanetary magnetic field (IMF) B(sub y) component during periods of southwrd IMF. This mechanism redirects the plasma flow from the dayside high-density region, which is the source of the tongue of ionization (TOI) density feature, through the throat and leads to patches, rather than a continuous TOI. The model predicts that the patches are absent at winter solstice (northern hemisphere) between 0800 and 1200 UT and that they have their largest seasonal intensity at winter solstice between 2000 and 2400 UT. Between winter solstice and equinox, patches are strong and present all day. Patches are present in summer as well, although their intensity is only tens of percent above the background density. These winter-to-equinox findings are also shown to be consistent with observations. The model was also used to predict times at which patch observations could be performed to determine the contributions from other patch mechanisms. This observational window is +/- 20 days about winter solstice between 0800 and 1200 UT in the northern hemisphere. In this observational window the TOI is either absent or reduced to a very low density. Hence the time dependent electric field mechanism considered in this study does not produce patches, and if they are observed, then they must be due to some other mechanism.

Sojka, J. J.↗

Divergent trait controls on soluble sugars and starch underlie global strategies of tree carbohydrate storage

Nonstructural carbohydrate (NSC) stores buffer tree metabolism, osmotic regulation, and defense, thereby mediating tolerance and survival under climate extremes. Yet, the functional and evolutionary determinants of interspecific variation in NSC remain elusive, limiting understanding and prediction of forest carbon allocation and mortality under global change. Here, we present a cross-species synthesis of NSC concentrations across multiple organs for 281 woody species from 102 mixed forest communities worldwide, where we quantified species-specific deviations from community means to disentangle intrinsic trait effects from environmental and methodological variation. We found phylogenetic signals in NSC deviations, with coniferous gymnosperms and evergreen species consistently maintaining lower stem soluble sugars and starch concentrations than co-occurring angiosperms and deciduous species, respectively. A global pattern emerged where greater stomatal sensitivity to leaf water potential was associated with declines in the relative concentrations of both sugars and starch. In contrast, xylem hydraulic safety traits showed weak and organ-dependent relationships with NSC concentrations. Sugars increased with photosynthetic capacity and declined with wood density, whereas starch showed the reverse pattern, which aligned with the distinct functional-metabolic roles of sugars and starch. By integrating trait-based ecology with a community-centered framework, our study provides global evidence that stomatal regulation, photosynthetic capacity, specific leaf area, and wood density jointly govern interspecific NSC variation, through contrasting effects on sugars and starch. These are among the most broadly measured traits globally, thus the emergent carbohydrate–trait relationships can have broad applications toward understanding and predicting forest growth and survival under climate change.

tropic system↗

A time dependent anatomically detailed model of cardiac conduction

In order to understand the determinants of transitions in cardiac electrical activity from normal patterns to dysrhythmias such as ventricular fibrillation, we are constructing an anatomically and physiologically detailed finite element simulation of myocardial electrical propagation. A healthy human heart embedded in paraffin was sectioned to provide a detailed anatomical substrate for model calculations. The simulation of propagation includes anisotropy in conduction velocity due to fiber orientation as well as gradients in conduction velocities, absolute and relative refractory periods, action potential duration and electrotonic influence of nearest neighbors. The model also includes changes in the behaviour of myocardial tissue as a function of the past local activity. With this model, we can examine the significance of fiber orientation and time dependence of local propagation parameters on dysrhythmogenesis.

Computer Simulation↗

Vascular Patterning Analysis by VESGEN 2D/3D with Bioinformatics: Updates for Rodent Tissues

Fractally branching vascular systems are a complex physiological requirement shared by humans with all higher terrestrial life forms, including other vertebrates, insects, and higher land plants. Vascular trees, networks, and tree-network composites are therefore mapped and quantified by the VESsel GENeration Analysis (VESGEN) software according to weighted physiological vascular rules that include vessel connectivity, tapering and bifurcational branching. According to fluid dynamics, successful vascular transport depends upon a complex distributed system of highly regulated laminar flow. VESGEN has elucidated changes in vascular patterning resulting from inflammatory, developmental and other signaling pathways within numerous tissues of major model organisms important for Space Biology, especially for rodents. Important early stage regenerative opportunities have been identified by VESGEN vascular analysis for visual impairments in the human retina, and is currently being used for research into astronaut visual and ocular disorders associated with long duration missions. The VESGEN 2D software is a mature, automated, widely published capability for which beta testing and public release by NASA is planned for the upcoming year. Early-stage capabilities for VESGEN 3D analysis are under development for the rodent retina and intestine as prototype tissues. A prototype VESGEN 2D Bioinformatics software capability has also been developed to associate phenotypic changes in molecular expression with vascular structure and function. By new VESGEN bioinformatic innovations, expression patterns of the genetic, transcriptional, protein and other markers for regulatory molecules such as vascular endothelial growth factor (VEGF) and their receptors, often indicators of tissue oxygenation status, are co-localized with alterations in vascular pattern. Biomarkers are therefore mapped and quantified as information dimensions directly correlated with the spatial dimensions of a vascular pattern. Further important technology innovations by NASA include substantial image segmentation advances for more automated binary extraction of the grayscale vascular patterns, together with informative associated image quality assessments. Vascular mapping and quantification capabilities for the rodent retina and intestine are illustrated for VESGEN 2D, along with technology status reports on VESGEN 3D and Bioinformatic capabilities. Research partially supported by Ames Center Innovation Awards.

Parsons-Wingerter, P.↗

A Unidirectional Two-Compartment Neuron Circuit with On-chip STDP learning

Most neuromorphic chips implement the single-compartment point neuron model where synapse circuits connect directly to a leaky integrate and fire (LIF) soma circuit. However, when using a biologically plausible soma circuit (e.g., Hodgkin-Huxley neuron model), an interface circuitry, such as a current conveyor circuit, is needed to transmit synaptic current to the soma circuit. This is especially true for ultra-low power neuron circuits, where membrane capacitance is on the order of 20 fF. This need for an interface circuit arises because the parasitic capacitance and leakage current caused by fabrication mismatch and second-order effects of the output transistors in the synapse circuits can disturb the spiking dynamics of the soma circuit if connected without an interface. Using an interface circuit to isolate the soma’s membrane capacitor from synapses resolves this issue. We propose to use a unidirectional resistor (a transconductance circuit) to connect the synapse and soma circuits instead of conventional current conveyor circuits. Using a biologically plausible spike pattern detection model, we show that the on-chip spike-timing-dependent plasticity (STDP) learning performance of the proposed unidirectional two-compartment neuron circuit is similar to a single-compartment circuit (with a current conveyor as an interface) and additionally, it is more power-efficient and biologically plausible. The chip is fabricated in the Taiwan Semiconductor Manufacturing Company (TSMC) 250 nm technology node and comprises a single neuron circuit.

Gautam, Ashish [ORNL]↗

Effect of Propellant Feed System Coupling and Hydraulic Parameters on Analysis of Chugging

A digital distributed parameter model was used to study the effects of propellant-feed- system coupling and various hydraulic parameters on the analytical prediction of chugging instabilities. Coupling between the combustion chamber and feed system was controlled by varying the compliance of the injector-dome region. The coupling with the feed system above the pump was varied by changing the amount of cavitation compliance at the pump inlet. The stability limits and chugging frequencies proved to be strongly dependent on the degree of feed-system coupling. The maximum stability condition occurred with intermediate coupling. Under conditions of a high degree of feed-system-combustor coupling, the stability limits and chugging frequencies were primarily dependent on the feed-system characteristics; the responses were characterized by beating patterns. For the system analyzed, the pump suction line had little effect on the stability limits or chugging frequencies. Beating, present under the condition of near zero injector -dome compliance, was eliminated when the suction line was decoupled by employing a sufficiently high value of pump-inlet compliance. Under conditions of maximum feed-system coupling, the magnitude and distribution of line losses in the discharge line had a significant effect on the stability limits but had negligible effect on the chugging frequency and beating characteristics. Also, the length of the discharge line greatly affected the stability limits, chugging frequency, and beating characteristics. The length of the suction line, however, had little effect on the stability limits and chugging frequency but did influence the beating pattern. A resistive-shunt device attached to the pump discharge line to suppress chugging was investigated. The analysis showed that the device was effective under conditions of high feed-system coupling.

CHUGGING↗

Velocity of the solar wind as determined from interplanetary scintillations.

The method of smooth perturbations is used to derive the equations for interplanetary scintillation in a (statistically) spherically symmetric solar wind with constant wind velocity. The expressions, valid in the limit of small scintillation index, are used to discuss the relation between the radial wind velocity and the observed projected velocity of the scintillation pattern. It is found that the pattern velocity is systematically less than the wind velocity by a substantial fraction, depending on the radial variation of the density fluctuations. If the fluctuations fall off as 1/r-squared the correction is 18 percent, whereas if the fluctuations are proportional to 1/r the correction is 57 percent. The effects may be even more severe if the solar wind is not spherically symmetric.

Jokipii, J. R.↗

Wind power research at Oregon State University

There have been two primary thrusts of the research effort to date, along with several supplementary ones. One primary area has been an investigation of the wind fields along coastal areas of the Pacific Northwest, not only at the shoreline but also for a number of miles inland and offshore as well. Estimates have been made of the influence of the wind turbulence as measured at coastal sites in modifying the predicted dependence of power generated on the cube of the wind speed. Wind flow patterns in the Columbia River valley have also been studied. The second primary thrust has been to substantially modify and improve an existing wind tunnel to permit the build up of a boundary layer in which various model studies will be conducted. One of the secondary studies involved estimating the cost of building an aerogenerator.

Hewson, E. W.↗

The average auroral zone electric field

Four hundred and seventy-eight hours of electric field data obtained by the flight of 32 balloons between L = 5.4 and L = 8.2 have been averaged to determine mean properties of the auroral zone electric field. The results are understood in terms of a model in which the two-cell convection pattern is rotated about the sun-earth line by an amount that depends on the sign and magnitude of the y component of the interplanetary magnetic field. This model and the data suggest either that important parallel potential drops exist along auroral zone magnetic field lines or that simple conjugacy between the two hemispheres does not exist along such field lines.

Mozer, F. S.↗

Interface effects in the dissolution of silicon into thin gold films

The dissolution of crystalline Si and amorphous Si substrates into thin films of evaporated Au was studied with an electron microprobe and scanning electron microscopy. The dissolution pattern was found to be nonuniform along the plane of the surface and dependent on the crystalline orientation of the Si substrate. The dissolution is greatly facilitated when a very thin layer of Pd is evaporated between the Si substrate and the Au film.

Sankur, H.↗

Transfer function characteristics of super resolving systems

Signal quality in an optical storage device greatly depends on the optical system transfer function used to write and read data patterns. The problem is similar to analysis of scanning optical microscopes. Hopkins and Braat have analyzed write-once-read-many (WORM) optical data storage devices. Herein, transfer function analysis of magnetooptic (MO) data storage devices is discussed with respect to improving transfer-function characteristics. Several authors have described improving the transfer function as super resolution. However, none have thoroughly analyzed the MO optical system and effects of the medium. Both the optical system transfer function and effects of the medium of this development are discussed.

Milster, Tom D.↗

Aspects of body self-calibration

The representation of body orientation and configuration is dependent on multiple sources of afferent and efferent information about ongoing and intended patterns of movement and posture. Under normal terrestrial conditions, we feel virtually weightless and we do not perceive the actual forces associated with movement and support of our body. It is during exposure to unusual forces and patterns of sensory feedback during locomotion that computations and mechanisms underlying the ongoing calibration of our body dimensions and movements are revealed. This review discusses the normal mechanisms of our position sense and calibration of our kinaesthetic, visual and auditory sensory systems, and then explores the adaptations that take place to transient Coriolis forces generated during passive body rotation. The latter are very rapid adaptations that allow body movements to become accurate again, even in the absence of visual feedback. Muscle spindle activity interpreted in relation to motor commands and internally modeled reafference is an important component in permitting this adaptation. During voluntary rotary movements of the body, the central nervous system automatically compensates for the Coriolis forces generated by limb movements. This allows accurate control to be maintained without our perceiving the forces generated.

NASA Discipline Neuroscience↗

Supergranule Superrotation Identified as a Projection Effect

Previous measurements of the rotation rate of the supergranule Doppler velocity pattern revealed surprising characteristics: (1) the pattern rotates faster than the plasma at the surface and, at each latitude, it rotates faster than the plasma at any level below the surface (superrotation), (2) larger cells rotate more rapidly than smaller cells, and (3) faster rotation rates are found when using cross-correlation techniques with larger time-lags between Doppler images. We simulate the supergranulation velocity pattern using a spectrum for the cellular flows that matches the observed spectrum but we keep the pattern unchanged and rotating rigidly. Our simulation shows that the superrotation and its dependence upon cell size can be largely reproduced by projection effects on the line-of-sight Doppler velocity signal. The remaining variation in rotation rate with cell size can be attributed to cells smaller than supergranules extending through shallower layers which have slower rotation rates.

Hathaway, D. H.↗

Age Dependent 3-D Magnetic Modeling of the North Pacific and North Atlantic Oceanic Crust at Intermediate Wavelengths

Three-dimensional magnetic modeling of the North Atlantic and Northeast pacific is performed at intermediate wavelengths using three models for the acquisition of a natural remanent magnetization. It is shown that a remanent magnetization which is dependent on the rustal age is the dominant source for the intermediate wavelength pattern in both basins.

magnetic modeling tectonics plate tectonics oceani↗

Constraints on the Emission and Viewing Geometry of the Transient Anomalous X-ray Pulsar XTE J1810-197

The temporal decay of the flux components of the transient anomalous X-ray pulsar XTE J1 810-197 following its 2002 outburst presents a unique opportunity to probe the emission geometry of a magnetar. Toward this goal, we model the magnitude of the pulsar's modulation in narrow spectral bands over time. Following previous work, we assume that the postoutburst flux is produced in two distinct thermal components arising from a hot spot and a warm concentric ring. We include general relativistic effects on the blackbody spectra due to gravitational redshift and light bending near the stellar surface, which strongly depend on radius. This affects the model fits for the temperature and size of the emission regions. For the hot spot, the observed temporal and energy-dependent pulse modulation is found to require an anisotropic, pencil-beamed radiation pattern. We are able to constrain an allowed range for the angles that the line of sight (psi) and the hot spot pole (xi) make with respect to the spin axis. Within errors, this is defined by the locus of points in the xi-psi plane that lie along the line [xi + beta(R)] [psi + [beta(R)] = const, where beta(R) is a function of the radius R of the star. For a canonical value of R = 12 km, the viewing parameters range from psi = xi = 37deg to (psi, xi) = (85deg, 15deg). We discuss our results in the context of magnetar emission models.

Perna, Rosalba↗

The ionospheric signatures of flux transfer events and solar wind dynamic pressure changes

Recent observations of vortical flow patterns in the dayside auroral ionosphere are discussed in terms of two alternative mechanisms: (1) the time-dependent magnetic reconnection in 'flux transfer events' (FTEs); and (2) the action of solar wind dynamic pressure changes at the magnetopause. It is argued that the ionospheric flow signature of an FTE should be a twin vortex, with the mean flow velocity in the central region of the pattern being equal to the velocity of the pattern as a whole. On the other hand, the pulse of enhanced or reduced dynamic pressure is also expected to produce a twin vortex, but with the central plasma flow being generally different in speed from (and almost orthogonal to) the motion of the whole pattern. It is found that, while none of the events discussed here are consistent with the theories of the effects of the dynamic pressure changes, all are well explained in terms of the ionospheric signatures of FTEs.

Lockwood, M.↗