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At least 505 records · Page 28

Dynamics of the solar transition zone

Time-resolved profiles of the 1548-A C IV line arising from the solar transition region are analyzed in order to determine whether the 300-sec oscillations characteristic of the photosphere and chromosphere penetrate into the transition zone and to measure the rms amplitude of transition-zone disturbances as well as their dependence on solar activity. The rms velocity amplitude is used to set limits on the mechanical energy flux available for solar heating. A power-spectrum analysis indicates that acoustic waves appear to have been detected in the transition zone, that at least one case of a strong 200- to 300-sec oscillation was observed, but that strong periodicities are not found on the average in either the intensity or the velocity field. It is suggested that the rms velocity that may be attributed to directly observable wave motion is between 3 and 7 km/s, depending on whether the individual emission elements seen in rocket spectra are coherent or independent in phase.

Bruner, E. C., Jr.↗

Dynamic compression and volatile release of carbonates

Particle velocity profiles upon shock compression and isentropic releases were measured for polycrystalline calcite. The Solenhofen limestone release paths lie, close to the Hugoniot. Calcite 3 to 2 transition, upon release, was observed, but rarefaction shocks were not detected. The equation of state is used to predict the fraction of material devolatilized upon isentropic release as a function of shock pressure. The effect of ambient partial pressure of CO2 on the calculations is demonstrated and considered in models of atmospheric evolution by impact induced mineral devolatilization. The radiative characteristics of shocked calcite indicate that localization of thermal energy occurs under shock compression. Shock entropy calculations result in a minimum estimate of 90% devolatilization upon complete release from 10 GPa. Isentropic release paths from calculated continuum Hugoniot temperatures cross into the CaO (solid) + CO2 (vapor) field at improbably low pressures. It is found that release paths from measured shock temperatures cross into the melt plus vapor field at pressures greater than .5 GPa, which suggests that devolatilization is initiated at the shear banding sites.

Tyburczy, J. A.↗

Dynamic compression and volatile release of carbonates

Particle velocity profiles upon shock compression and isentropic releases were measured for polycrystalline calcite. The Solenhofen limestone release paths lie close to the Hugoniot. Calcite 3 to 2 transition, upon release was observed, but rarefaction shocks were not detected. The equation of state is used to predict the fraction of material devolatilized upon isentropic release as a function of shock pressure. The effect of ambient partial pressure of CO2 on the calculations is demonstrated and considered in models of atmospheric evolution by impact induced mineral devolatilization. The radiative characteristics of shocked calcite indicate that localization of thermal energy occurs under shock compression. Shock entropy calculations result in a minimum estimate of 90 percent devolatilization upon complete release from 10 GPa. Isentropic release paths from calculated continuum Hugoniot temperatures cross into the CaO (solid) + CO2 (vapor) field at improbably low pressures. It is found that release paths from measured shock temperatures cross into the melt plus vapor field at pressures greater than .5 GPa, which suggests that devolatilization is initiated at the shear banding sites.

Tyburczy, J. A.↗

Electron momentum spectroscopy of dimethyl ether taking account of nuclear dynamics in the electronic ground state

The influence of nuclear dynamics in the electronic ground state on the (e,2e) momentum profiles of dimethyl ether has been analyzed using the harmonic analytical quantum mechanical and Born-Oppenheimer molecular dynamics approaches. In spite of fundamental methodological differences, results obtained with both approaches consistently demonstrate that molecular vibrations in the electronic ground state have a most appreciable influence on the momentum profiles associated to the 2b{sub 1}, 6a{sub 1}, 4b{sub 2}, and 1a{sub 2} orbitals. Taking this influence into account considerably improves the agreement between theoretical and newly obtained experimental momentum profiles, with improved statistical accuracy. Both approaches point out in particular the most appreciable role which is played by a few specific molecular vibrations of A{sub 1}, B{sub 1}, and B{sub 2} symmetries, which correspond to C–H stretching and H–C–H bending modes. In line with the Herzberg-Teller principle, the influence of these molecular vibrations on the computed momentum profiles can be unraveled from considerations on the symmetry characteristics of orbitals and their energy spacing.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Vertical structure and physical processes of the Madden-Julian Oscillation: Biases and uncertainties at short range

We present an analysis of diabatic heating and moistening processes from 12 to 36 h lead time forecasts from 12 Global Circulation Models as part of the “Vertical structure and physical processes of the Madden-Julian Oscillation (MJO)” project. A lead time of 12–36 h is chosen to constrain the large-scale dynamics and thermodynamics to be close to observations while avoiding being too close to the initial spin-up of the models as they adjust to being driven from the Years of Tropical Convection (YOTC) analysis. A comparison of the vertical velocity and rainfall with the observations and YOTC analysis suggests that the phases of convection associated with the MJO are constrained in most models at this lead time although the rainfall in the suppressed phase is typically overestimated. Although the large-scale dynamics is reasonably constrained, moistening and heating profiles have large intermodel spread. In particular, there are large spreads in convective heating and moistening at midlevels during the transition to active convection. Radiative heating and cloud parameters have the largest relative spread across models at upper levels during the active phase. A detailed analysis of time step behavior shows that some models show strong intermittency in rainfall and differences in the precipitation and dynamics relationship between models. In conclusion, the wealth of model outputs archived during this project is a very valuable resource for model developers beyond the study of the MJO. Additionally, the findings of this study can inform the design of process model experiments, and inform the priorities for field experiments and future observing systems.

54 ENVIRONMENTAL SCIENCES↗

Modeling hot gas flow in the low-luminosity active galactic nucleus of NGC 3115

Based on the dynamical black hole (BH) mass estimates, NGC 3115 hosts the closest billion solar mass BH. Deep studies of the center revealed a very underluminous active galactic nucleus (AGN) immersed in an old massive nuclear star cluster. Recent 1 Ms Chandra X-ray visionary project observations of the NGC 3115 nucleus resolved hot tenuous gas, which fuels the AGN. In this paper we connect the processes in the nuclear star cluster with the feeding of the supermassive BH. We model the hot gas flow sustained by the injection of matter and energy from the stars and supernova explosions. We incorporate electron heat conduction as the small-scale feedback mechanism, the gravitational pull of the stellar mass, cooling, and Coulomb collisions. Fitting simulated X-ray emission to the spatially and spectrally resolved observed data, we find the best-fitting solutions with χ{sup 2}/dof = 1.00 for dof = 236 both with and without conduction. The radial modeling favors a low BH mass <1.3 × 10{sup 9} M {sub ☉}. The best-fitting supernova rate and the best-fitting mass injection rate are consistent with their expected values. The stagnation point is at r {sub st} ≲ 1'', so that most of the gas, including the gas at a Bondi radius r{sub B} = 2''-4'', outflows from the region. We put an upper limit on the accretion rate at 2 × 10{sup –3} M {sub ☉} yr{sup –1}. We find a shallow density profile n∝r {sup –β} with β ≈ 1 over a large dynamic range. This density profile is determined in the feeding region 0.''5-10'' as an interplay of four processes and effects: (1) the radius-dependent mass injection, (2) the effect of the galactic gravitational potential, (3) the accretion flow onset at r ≲ 1'', and (4) the outflow at r ≳ 1''. The gas temperature is close to the virial temperature T{sub v} at any radius.

79 ASTRONOMY AND ASTROPHYSICS↗

A Deep Generative Model for Non-Intrusive Identification of EV Charging Profiles

The proliferation of electric vehicles (EVs) brings environmental benefits and technical challenges to power grids. An identification algorithm which can accurately extract individual EV charging profiles out of widely available smart meter measurements has attracted great interests. This paper proposes a non-intrusive identification framework for EV charging profile extraction, which is driven by deep generative models (DGM). First, the proposed DGM is designed as a representation layer embedded into the Markov process and used to model the joint probability distribution of available time-series data. A novel contribution is to approximate posterior distributions by neural networks whose parameters are obtained by variational inference and supervised learning. Second, the EV charging status is inferred from the DGM via dynamic programming. Lastly, the desired EV charging profile can be reconstructed by the rated power of EV models and inferred status. Compared with the benchmark Hidden Markov Models, the proposed framework can better handle noise in data with less computational complexity and better overall accuracy performances with smaller recall. The proposed framework is validated by numerical experiments on the Pecan Street dataset.

33 ADVANCED PROPULSION SYSTEMS↗

The Tropospheric Wind Lidar Technology Experiment (TWiLiTE): An Airborne Direct Detection Doppler Lidar Instrument Development Program

Global measurement of tropospheric winds is a key measurement for understanding atmospheric dynamics and improving numerical weather prediction. Global wind profiles remain a high priority for the operational weather community and also for a variety of research applications including studies of the global hydrologic cycle and transport studies of aerosols and trace species. In addition to space based winds, a high altitude airborne system flown on UAV or other advanced platforms would be of great interest for studying mesoscale dynamics and hurricanes. The Tropospheric Wind Lidar Technology Experiment (TWiLiTE) project was selected in 2005 by the NASA Earth Sun Technology Office as part of the Instrument Incubator Program. TWiLiTE will leverage significant research and development investments in key technologies made in the past several years. The primary focus will be on integrating these sub-systems into a complete molecular direct detection Doppler wind lidar system designed for autonomous operation on a high altitude aircraft, such as the NASA WB57, so that the nadir viewing lidar will be able to profile winds through the full troposphere. TWiLiTE is a collaboration involving scientists and technologists from NASA Goddard, NOAA ESRL, Utah State University Space Dynamics Lab and industry partners Michigan Aerospace Corporation and Sigma Space Corporation. NASA Goddard and it's partners have been at the forefront in the development of key lidar technologies (lasers, telescopes, scanning systems, detectors and receivers) required to enable spaceborne global wind lidar measurement. The TWiLiTE integrated airborne Doppler lidar instrument will be the first demonstration of a airborne scanning direct detection Doppler lidar and will serve as a critical milestone on the path to a fixture spaceborne tropospheric wind system. The completed system will have the capability to profile winds in clear air from the aircraft altitude of 18 h to the surface with 250 m vertical resolution and less than 2 meters per second velocity accuracy. The instrument design, technologies and predicted performance will be presented.

Gentry, Bruce↗

Quasielastic neutron scattering in biology: Theory and applications

Neutrons scatter quasielastically from stochastic, diffusive processes, such as overdamped vibrations, localized diffusion and transitions between energy minima. In biological systems, such as proteins and membranes, these relaxation processes are of considerable physical interest. We review here recent methodological advances and applications of quasielastic neutron scattering (QENS) in biology, concentrating on the role of molecular dynamics simulation in generating data with which neutron profiles can be unambiguously interpreted. We examine the use of massively-parallel computers in calculating scattering functions, and the application of Markov state modeling. The decomposition of MD-derived neutron dynamic susceptibilities is described, and the use of this in combination with NMR spectroscopy. We discuss dynamics at very long times, including approximations to the infinite time mean-square displacement and nonequilibrium aspects of single-protein dynamics. Lastly, we examine how neutron scattering and MD can be combined to provide information on lipid nanodomains.

59 BASIC BIOLOGICAL SCIENCES↗

Methods for studying the coherent 4D structural dynamics of free molecules and condensed state of matter

Studies in the coupled 4D spatial and temporal continuum are necessary for understanding the dynamic features of molecular systems with a complex profile of the potential energy surface. The introduction of time sweep into diffraction methods and the development of principles for studying coherent processes have revealed new approaches to the analysis of the dynamics of wave packets, the intermediate products and the transition state of the reaction center, and short-lived compounds in gaseous and condensed media. The use of picosecond and femtosecond electron probe pulses, synchronized with excitation laser pulses, determined the development of ultrafast electron crystallography, time-resolved X-ray diffraction, and dynamic transmission electron microscopy (DTEM). One of the most promising applications of the developed diffraction methods is the characterization and visualization of the processes occurring upon the photoexcitation of free molecules and biological objects and the analysis of surface and thin films. The whole set of spectral and diffraction methods based on different physical principles, which are complementary and make it possible to perform the photoexcitation of nuclei and electrons and carry out diagnostics of their dynamics at ultrashort time sequences, reveal new possibilities for studies with the necessary integration of the 'structure-dynamics-function' triad in chemistry, biology, and materials science.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Fusion Simulation Program Execution Plan

The overall science goal of the FSP is to develop predictive simulation capability for magnetically confined fusion plasmas at an unprecedented level of integration and fidelity. This will directly support and enable effective U.S. participation in research related to the International Thermonuclear Experimental Reactor (ITER) and the overall mission of delivering practical fusion energy. The FSP will address a rich set of scientific issues together with experimental programs, producing validated integrated physics results. This is very well aligned with the mission of the ITER Organization to coordinate with its members the integrated modeling and control of fusion plasmas, including benchmarking and validation activities. Initial FSP research will focus on two critical areas: 1) the plasma edge and 2) whole device modeling including disruption avoidance. The first of these problems involves the narrow plasma boundary layer and its complex interactions with the plasma core and the surrounding material wall. The second requires development of a computationally tractable, but comprehensive model that describes all equilibrium and dynamic processes at a sufficient level of detail to provide useful prediction of the temporal evolution of fusion plasma experiments. The initial driver for the whole device model (WDM) will be prediction and avoidance of discharge-terminating disruptions, especially at high performance, which are a critical impediment to successful operation of machines like ITER. If disruptions prove unable to be avoided, their associated dynamics and effects will be addressed in the next phase of the FSP. The FSP plan targets the needed modeling capabilities by developing Integrated Science Applications (ISAs) specific to their needs. The Pedestal-Boundary model will include boundary magnetic topology, cross-field transport of multi-species plasmas, parallel plasma transport, neutral transport, atomic physics and interactions with the plasma wall. It will address the origins and structure of the plasma electric field, rotation, the L-H transition, and the wide variety of pedestal relaxation mechanisms. The Whole Device Model will predict the entire discharge evolution given external actuators (i.e., magnets, power supplies, heating, current drive and fueling systems) and control strategies. Based on components operating over a range of physics fidelity, the WDM will model the plasma equilibrium, plasma sources, profile evolution, linear stability and nonlinear evolution toward a disruption (but not the full disruption dynamics). The plan assumes that, as the FSP matures and demonstrates success, the program will evolve and grow, enabling additional science problems to be addressed. The next set of integration opportunities could include: 1) Simulation of disruption dynamics and their effects; 2) Prediction of core profile including 3D effects, mesoscale dynamics and integration with the edge plasma; 3) Computation of non-thermal particle distributions, self-consistent with fusion, radio frequency (RF) and neutral beam injection (NBI) sources, magnetohydrodynamics (MHD) and short-wavelength turbulence.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

PIXEL ANALYSIS OF PHOTOSPHERIC SPECTRAL DATA. I. PLASMA DYNAMICS

Recent observations of the photosphere using high spatial and temporal resolution show small dynamic features at or below the current resolving limits. A new pixel dynamics method has been developed to analyze spectral profiles and quantify changes in line displacement, width, asymmetry, and peakedness of photospheric absorption lines. The algorithm evaluates variations of line profile properties in each pixel and determines the statistics of such fluctuations averaged over all pixels in a given region. The method has been used to derive statistical characteristics of pixel fluctuations in observed quiet-Sun regions, an active region with no eruption, and an active region with an ongoing eruption. Using Stokes I images from the Vector Spectromagnetograph (VSM) of the Synoptic Optical Long-term Investigations of the Sun (SOLIS) telescope on 2012 March 13, variations in line width and peakedness of Fe i 6301.5 Å are shown to have a distinct spatial and temporal relationship with an M7.9 X-ray flare in NOAA 11429. This relationship is observed as stationary and contiguous patches of pixels adjacent to a sunspot exhibiting intense flattening in the line profile and line-center displacement as the X-ray flare approaches peak intensity, which is not present in area scans of the non-eruptive active region. The analysis of pixel dynamics allows one to extract quantitative information on differences in plasma dynamics on sub-pixel scales in these photospheric regions. The analysis can be extended to include the Stokes parameters and study signatures of vector components of magnetic fields and coupled plasma properties.

79 ASTRONOMY AND ASTROPHYSICS↗

Trapped ultracold bosons in periodically modulated lattices

Motivated by the recent rapid development of the field of quantum gases in optical lattices, we present a comprehensive study of the spectrum of ultracold atoms in a one-dimensional optical lattice subjected to a periodic lattice modulation. Using the time-dependent density matrix renormalization group method, we study the dynamical response due to lattice modulations in different quantum phases of the system with varying density. For the Mott-insulating state, we identify several excitation processes, which provide important information about the density profile of the gases. For the superfluid, the dynamical response can be well described in a local density approximation. This simplification can be valuable in understanding the strong-correlated superfluid in a slow-varying harmonic potential. All these spectroscopic features of an inhomogeneous system can be used as a test for the validity of the Bose-Hubbard model in a parabolic trapping potential.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Dynamic models of flux tubes in the interpretation of polarization measurements

Recent observations of Stokes parameter profiles indicate the presence of mass motions with large velocity gradients associated with small-scale magnetic elements. Dynamic models of flux tubes were used in order to interpret observations of unresolved elements. It is clear that the physical picture of the dynamic models will be quite different from the hydrostatic ones since there is a strong coupling between the magnetic and the velocity field. Polarization measurements have to be interpreted in terms of dynamic models. Two-D steady flow solutions in slender magnetic tubes have been worked out. It was found that the main properties of the intensity line profiles as well as the asymmetries of the V Stokes profiles can be explained best in terms of magnetic elements with moderate field strength.

Ribes-Nesme, E.↗

Binding of Nucleoid-Associated Protein Fis to DNA Is Regulated by DNA Breathing Dynamics

Physicochemical properties of DNA, such as shape, affect protein-DNA recognition. However, the properties of DNA that are most relevant for predicting the binding sites of particular transcription factors (TFs) or classes of TFs have yet to be fully understood. Here, using a model that accurately captures the melting behavior and breathing dynamics (spontaneous local openings of the double helix) of double-stranded DNA, we simulated the dynamics of known binding sites of the TF and nucleoid-associated protein Fis in Escherichia coli. Our study involves simulations of breathing dynamics, analysis of large published in vitro and genomic datasets, and targeted experimental tests of our predictions. Our simulation results and available in vitro binding data indicate a strong correlation between DNA breathing dynamics and Fis binding. Indeed, we can define an average DNA breathing profile that is characteristic of Fis binding sites. This profile is significantly enriched among the identified in vivo E. coli Fis binding sites. To test our understanding of how Fis binding is influenced by DNA breathing dynamics, we designed base-pair substitutions, mismatch, and methylation modifications of DNA regions that are known to interact (or not interact) with Fis. The goal in each case was to make the local DNA breathing dynamics either closer to or farther from the breathing profile characteristic of a strong Fis binding site. For the modified DNA segments, we found that Fis-DNA binding, as assessed by gel-shift assay, changed in accordance with our expectations. We conclude that Fis binding is associated with DNA breathing dynamics, which in turn may be regulated by various nucleotide modifications.

59 BASIC BIOLOGICAL SCIENCES↗

Space-Charge and Other Effects in Fermilab Booster and IOTA Rings’ Ionization Profile Monitors

Ionization profile monitors (IPMs) are widely used in accelerators for non-destructive and fast diagnostics of high energy particle beams. At low beam intensities, initial velocities of the secondaries to collect (ions or electrons) result in the IPM profile smearing. At high beam intensities, the space-charge forces make the measured IPM profiles significantly different from those of the beams. We analyze dynamics of the secondaries in IPMs, describe an effective algorithm to reconstruct the beam sizes from the measured IPM profiles and apply it to the Fermilab 8 GeV proton Booster and 70 MeV/c IOTA ring IPMs.

Shiltsev, Vladimir D.↗

Development of HuMiChip for Functional Profiling of Human Microbiomes

Understanding the diversity, composition, structure, function, and dynamics of human microbiomes in individual human hosts is crucial to reveal human-microbial interactions, especially for patients with microbially mediated disorders, but challenging due to the high diversity of the human microbiome. Here we have developed a functional gene-based microarray for profiling human microbiomes (HuMiChip) with 36,802 probes targeting 50,007 protein coding sequences for 139 key functional gene families. Computational evaluation suggested all probes included are highly specific to their target sequences. HuMiChip was used to analyze human oral and gut microbiomes, showing significantly different functional gene profiles between oral and gut microbiome. Obvious shifts of microbial functional structure and composition were observed for both patients with dental caries and periodontitis from moderate to advanced stages, suggesting a progressive change of microbial communities in response to the diseases. Consistent gene family profiles were observed by both HuMiChip and next generation sequencing technologies. Additionally, HuMiChip was able to detect gene families at as low as 0.001% relative abundance. The results indicate that the developed HuMiChip is a useful and effective tool for functional profiling of human microbiomes.

59 BASIC BIOLOGICAL SCIENCES↗