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At least 1,207 records · Page 67

Structural determinants of APOBEC3B non-catalytic domain for molecular assembly and catalytic regulation

The catalytic activity of human cytidine deaminase APOBEC3B (A3B) has been correlated with kataegic mutational patterns within multiple cancer types. The molecular basis of how the N-terminal non-catalytic CD1 regulates the catalytic activity and consequently, biological function of A3B remains relatively unknown. Here, we report the crystal structure of a soluble human A3B-CD1 variant and delineate several structural elements of CD1 involved in molecular assembly, nucleic acid interactions and catalytic regulation of A3B. We show that (i) A3B expressed in human cells exists in hypoactive high-molecular-weight (HMW) complexes, which can be activated without apparent dissociation into low-molecular-weight (LMW) species after RNase A treatment. (ii) Multiple surface hydrophobic residues of CD1 mediate the HMW complex assembly and affect the catalytic activity, including one tryptophan residue W127 that likely acts through regulating nucleic acid binding. (iii) One of the highly positively charged surfaces on CD1 is involved in RNA-dependent attenuation of A3B catalysis. (iv) Surface hydrophobic residues of CD1 are involved in heterogeneous nuclear ribonucleoproteins (hnRNPs) binding to A3B. The structural and biochemical insights described here suggest that unique structural features on CD1 regulate the molecular assembly and catalytic activity of A3B through distinct mechanisms.

59 BASIC BIOLOGICAL SCIENCES↗

Understanding the Response of Common Spacecraft Shields to Hypervelocity Impacts of Meteorite and Other Terrestrial Analog Materials

Micrometeoroid and orbital debris (MMOD) populations can vary significantly in composition, density, and homogeneity. Hypervelocity testing campaigns intended to design and optimize MMOD shields for spacecraft are recognizing the need to investigate shield response from different types of impactors that span the range of densities observed in the MMOD population, such as nylon, Al, Al 2 O 3 , steel, and Cu. These tests, however, still pre-dominantly employ spherical and homogenous projectiles. Adding any compositional or mineralogical complexity to the impactor, such as what would be expected from a polymineralic micrometeoroid, for ex-ample, will be concomitant with a more complex shockwave structure in the projectile after it impacts the outer surface of any type of MMOD shield. The magnitude of these complexities will depend on how varied the mineralogy of the projectile is, but in the case of a metal-bearing chondrite, the disparate shock impendence between adjacent metal and silicate grains will potentially create localized areas of shock focusing (local increase in nominal shock pressure), or shock shadowing (local decrease in nominal shock pressure). The response of a MMOD shield is generally predicted using a ballistic limit equation – a semiempirical curve, derived from hypervelocity testing data, that denotes a particle diameter (for a given set of impact conditions such as projectile density and impact angle) when a shield will fail as a function of impact speed. These curves exhibit inflection points as a function of impact speed that represent when the projectile experiences sufficient pressure to fragment, melt, or vaporize. The introduction of shock focusing and shadowing in a heterogenous projectile will add uncertainty to the predicted pressures needed to go through each transition, leading to increased uncertainty in the expected performance of the MMOD shield. Therefore, it is necessary to explore the performance of MMOD shields in hypervelocity tests against more complex, natural projectile materials. To this end we have conducted a comparative test series to begin investigating the impact damage caused by meteoritic and terrestrial-analog projectiles, to that of spherical Al projectiles of similar mass.

Impact testing↗

Average hydrodynamic radius analysis reveals critical solvation thresholds in high-concentration lithium electrolytes

Understanding the solvation structures of lithium salts in carbonate- and ether-based electrolytes is central to explaining the exceptional stability of high-concentration electrolytes (HCEs) and localized high-concentration electrolytes (LHCEs). Conventional techniques such as vibrational spectroscopy and one-dimensional NMR provide only limited information, typically restricted to coordination ratios and ion-pair distributions, without revealing the actual size and mass of solution complexes. Here, in this study, we introduce an average hydrodynamic radius (AHR) analysis based on internally referenced DOSY NMR, which enables direct estimation of the average volume and molecular weight of lithium–solvent complexes in solution. Using LiFSI–EMC and LiFSI–EMC–TTE electrolytes, we demonstrate that the onset of effective lithium metal stabilization and aluminum corrosion suppression coincides with the formation of very large complexes, whose average volume exceeds 300 times that of free EMC molecules. This finding supports a new “blocking mechanism,” wherein bulky solvated complexes impede direct solvent access to reactive surfaces. The AHR analysis thus not only clarifies the fundamental origin of HCE and LHCE effectiveness, but also provides a broadly applicable experimental framework for probing complex solvation structures and guiding rational electrolyte design.

Concentrated electrolytes↗

Basic Research of Intrinsic Tamper indication Markings and Patterns defined by Pulsed Laser Irradiation

With our previous research, it was found that surface asperities or roughness must be present to create periodic surface structures upon laser exposure. In particular, an initial rough surface morphology (such as that found with a machined surface) provides multiple sites for light scattering, which underlies the formation of periodic ripple morphologies. Light scattering from a random surface creates patterns of periodic structures (with complex orientations) that could be used as intrinsic markings for tagging materials and equipment. Despite these initial findings, the fundamental mechanisms that give rise to periodic surface structures and their characteristic shapes were not identified in prior research.

36 MATERIALS SCIENCE↗

Chemical processes in Triton's atmosphere and surface

The Neptune moon Triton may have an appreciable atmosphere; the preliminary calculations of Delitsky (1983) have suggested that there should be a significant resultant chemistry in a possible N2 ocean with dissolved CH4, given charged-particle radiolysis of gaseous mixtures and gamma radiolysis of N2-CH4 solutions. The latter will yield substantial quantities of organic products which will be partially soluble in any N2-CH4 liquid present. Attention is presently given to the energy sources available for Triton, in order to estimate rates of synthesis and ascertain the possible history of such simple and complex organic products on Triton's surface.

Delitsky, M. L.↗

RWF rotor-wake-fuselage code software reference guide

The RWF (Rotor-Wake-Fuselage) code was developed from first principles to compute the aerodynamics associated with the complex flow field of helicopter configurations. The code is sized for a single, multi-bladed main rotor and any configuration of non-lifting fuselage. The mathematical model for the RWF code is based on the integration of the momentum equations and Green's theorem. The unknowns in the problem are the strengths of prescribed singularity distributions on the boundaries of the flow. For the body (fuselage) a surface of constant strength source panels is used. For the rotor blades and rotor wake a surface of constant strength doublet panels is used. The mean camber line of the rotor airfoil is partitioned into surface panels. The no-flow boundary condition at the panel centroids is modified at each azimuthal step to account for rotor blade cyclic pitch variation. The geometry of the rotor wake is computers at each time step of the solution. The code produces rotor and fuselage surface pressures, as well as the complex geometry of the evolving rotor wake.

Berry, John D.↗

Mars - Photodesorption from mineral surfaces and its effects on atmospheric stability

Kinetic constraints are employed to identify the reactive chemisorbed complexes, to describe the mechanism of UV-accelerated desorption from Fe (+2) on mineral surfaces, and to estimate the photodesorption rate on Mars. In particular, it is proposed that gases such as O2, CO2, CO, H2O and N2 undergo an adsorption-desorption process at octahedrally coordinated Fe (+2) surface sites to produce seven-coordinate transition-state complexes. The ligand field stabilization energy acquired by these complexes lies between 16 and 18 kcal per mole. Published photocatalysis data are used to assess the role of photodesorption in Martian atmospheric chemistry and stability.

Huguenin, R. L.↗

Characterizing Physical Properties of Streambed Interface Sediments Using In Situ Complex Electrical Conductivity Measurements

Streambed sediment physical properties such as surface area, are difficult to quantify in situ but exert a high-level control on a wide range of biogeochemical processes and sorption of contaminants. We introduce the use of complex electrical conductivity (CC) methods (also known as spectral-induced polarization (SIP)) that measure both real and imaginary conductivity to noninvasively and efficiently characterize shallow streambed sediments. We explore the method through synthetic modeling, laboratory, and field measurements to demonstrate the sensitivity of imaginary conductivity to sediment surface area, controlled in part by fine-grained iron oxides produced by anoxic groundwater discharge. Laboratory measurements verify expected relationships between CC parameters and sediment properties. Synthetic modeling using a 1D analytical model illustrates the influence of water layer depth and conductivity on the field CC measurements made at the streambed-stream water interface. Specifically, the inverted sediment imaginary conductivity is less impacted by uncertainty in the water layer depth and conductivity relative to the real conductivity and phase shift. Field CC measurements along a landfill-impacted river reveal discrete streambed zones with enhanced bulk surface area generally corresponding to anoxic groundwater discharge zones with high concentrations of fine-grained iron oxide precipitates.

54 ENVIRONMENTAL SCIENCES↗

Vortex-Body Interactions: A Critical Assessment. Coupled Gap-Wake Instabilities/Turbulence: A Source of Noise

This program has involved, first of all, a critical state-of-the-art assessment of vortex-body interactions. Then, efforts were focused on experimental investigation on coupled-wake instabilities and turbulence occurring in a two-cylinder system. An extensive review was undertaken on the effect of incident vortices on various types of bodies. These incident vortices have a length scale of the same order of magnitude as the scale of the body. The body can take on various forms, including, for example, a circular cylinder, a blade or a wing. The classes of vortex-body interaction that were critically assessed include: (1) Periodic distortion of the incident (primary) vortex and shedding of secondary vorticity from the surface of the body. (2) Modulated vortex distortion and shedding at a leading-edge or surface due to incidence of a complex system of vortices. (3) Vortex distortion and shedding in presence of body oscillation. (4) Three-dimensional vortex interaction and shedding. For all of these classes of vortex-body interaction, quantitative topologies of the vorticity distributions and streamline patterns were found to be central to a unified description of mechanisms of vortex distortion and shedding. In most cases, it was possible to define relationships between vortex interactions and unsteady loading at the body surface. This phase of the program was an experimental investigation of a two-cylinder system, which simulated a central aspect of a four-wheel bogie on a large-scale commercial aircraft. The overall aim of this experimental research program was to determine the crucial elements of the unsteadiness in the gap and near-wake regions as a function of time using cinema-based techniques. During the research program, various image evaluation techniques were employed. They involved assessment of instantaneous velocity fields, streamline topology and patterns of vorticity. Experiments were performed in a large-scale water channel using a high-resolution version of digital particle image velocimetry. The program has focused on acquisition of images of velocity and vorticity for varying gap widths between the two-cylinder system. As a result of analysis of a relatively large number of images, it is demonstrated that low frequency instabilities can occur in the gap region between the cylinder. These low frequency instabilities are hypothesized to influence the near-wake structure of the entire two-cylinder system. The nature of the unstable shear layers in the gap region involves generation of small-scale Kelvin-Helmholtz instabilities. These unsteady shear layers then impinge upon the upper and lower surfaces of the cylinders, thereby influencing both the unsteady structure and the time-averaged patterns of the near-wake. Initial efforts have focused on characterization of the patterns of instantaneous and averaged streamlines using topological concepts. The end result of this investigation is a series of documented instantaneous images. They will serve as a basis for various types of post-processing, which will lead to a fuller understanding of the instantaneous and time-averaged unstable-turbulent fields in the gap region and downstream of the two-cylinder system. This further assessment is the focus of a subsequent program.

Rockwell, Donald↗

Assessing Relay Communications for Mars Sample Return Surface Mission Concepts

The Mars Sample Return (MSR) Campaign would be a 3-mission campaign concept supported by NASA and ESA to return samples from the Mars surface. MSR would, for the first time ever, present a need to communicate with multiple surface assets that are co-located on Mars in a coordinated effort to accomplish the unified objective of fetching, transporting, and returning samples from Mars. Currently, Mars surface assets relay data to and from Earth using a number of orbiters in what’s known as the Mars Relay Network (MRN). This network is characterized by a small number of surface assets distributed across the Martian globe and a larger number of orbiters to provide relay services. As of June 2020, there are two surface assets for which five orbiters are providing relay. During the MSR Campaign, there would be two rovers and a lander that all would require relay communication from a small number of Mars orbiters to meet the aggressive MSR timeline. The inversion of the current MRN paradigm, a system of many surface assets requiring relay and few orbiters to provide relay, necessitates the unique challenge of optimally allocating relay passes to maximize the operational capability of all assets. The allocation must consider a large number of trade variables including Mars asset operational requirements and Earth ground system constraints, including staffing schedules, operations planning across time zones, and more. To address these telecommunication challenges, the Mars Asset Relay Mission Link Allocation Design Environment (MARMLADE) tool was developed. It is a MATLAB-based tool to assign orbiter passes or Direct-From-Earth (DFE) links to each of the three surface assets and quantify the operational efficiency of each surface asset.MARMLADE uses a data set of simulated Mars relay orbiter geometry and telecommunication capabilities provided by JPL’s Telecom Orbit Analysis and Simulation Tool (TOAST) software to compute which asset should get each pass based on a series of heuristics and predictions of all assets’ states. Within MARMLADE, the user can provide inputs including the option for time-based pass splitting, fixed FWD data rate capabilities, DFE communication capabilities, and link parameters allowing for the assessment of complex operations and hardware trades using surface mission operational efficiency as a primary figure of merit. As the MSR mission concepts continue to mature, MARMLADE is being used to assess ability of all MSR elements to meet the surface mission timeline requirements and to provide relay link allocations to each of the MSR surface assets.This paper will describe the motivation and design of the MARMLADE tool and how it is being used to perform campaign and mission level trades, generate requirements, and support development of the MSR surface mission scenarios.

Lee, Charles↗

Charge-mediated cation deposition on metallic surfaces

This work reveals the general mechanisms of Li + cation partial reduction and further deposition under specific electrolyte conditions, and in the proximity of an electrified metal surface. The factors affecting the ion complexation and transport and resultant adsorbed structures are identified for various external electric fields and for several applied voltages. Using ab initio methods, we investigate the relation between solvent–salt structures and dynamics, cation reductive stability, and the existing electric field between electrodes, or under the applied potential if the system is designed as an electrochemical cell. In absence of an applied field, it is found that not only cation but also non-solvated salt deposition on a metallic surface is an endothermic process. However, localized surface polarization orbitals created by an external electric field affect both the thermodynamics and kinetics of the adsorption, leading to a drastic change on the energetic profile; ab initio molecular dynamics simulations describe in detail the underlying mechanisms. Externally applied bias to an electrochemical cell also changes the deposition dynamics: by examining various solvent/salt combinations, we unravel the cation deposition mechanisms at both low and moderately high voltages, determining the relative time scale of each separate process. In this work, different polyhedra formed by the metal cation and its surrounding oxygen atoms appear to be the key indicator driving deposition dynamics at different voltages. Our findings disclose the importance of selecting appropriate voltage windows for stable and uniform growth of metal anode layers, showing the mechanisms leading to impurity formation and non-uniform cation deposition, as well as the role of charged interfacial phenomena in designing stable electrode–electrolyte interfaces.

25 ENERGY STORAGE↗

Flight computers and sequencers

At present, the most common method of increasing reliability of a system against permanent random component failures is to triplicate the entire system and use voters. This method, though it enhances the reliability, does exact a heavy toll in weight and power consumption which increase by about 225%. In the future, computers will be required to perform complex tasks under adverse conditions on surfaces of planets for long periods of time (6 months or more), without any human intervention. At the same time there will be severe limitations on the weight and power consumption of these computers. For such systems it is obvious that simple triple-redundancy will not do. A more efficient and sophisticated design in redundancy has to evolve. This study has been directed toward that goal. It is understood that the initial design of such a system will be too complex and expensive to be used in a commercial computer; but for a space computer, reduction in weight (without reducing reliability) of every ounce means a great deal.

REDUNDANCY↗

AEOLIAN INTERDUNE FACIES OF THE NAVAJO SANDSTONE, UTAH

During the Early Jurassic an extensive desert environment covered a large area of the Western Interior of the USA. The Navajo Sandstone erg is thought to be one of the largest dunefields preserved in the rock record, estimated to have covered well over 500,000 km2, though the preserved extent is less due to erosion. The Navajo Sandstone outcrops extensively in eastern and southern Utah, forming spectacular domes and arches, including those in Arches National Park. Navajo Sandstone aeolian dunes consist of stacked, tabular sandstone bodies, displaying steeply dipping crossbedding, and are on average 15 m thick, with high porosity and permeability. In addition to these extensive paleodunes, interdune deposits are also documented, consisting of lensoid sandstone or pale grey limestone, of approximately 1-7 m thick. This research forms part of a broader investigation into the Navajo Sandstone in Utah, focusing on its potential as a CO2 reservoir. The internal stratigraphy of the Navajo Sandstone can be complex, with multiple types of aeolian surfaces present including discontinuous inter-dune contacts, and inclined bedding planes associated with large climbing dunes. Interdune deposits may be associated with more laterally extensive stratigraphic surfaces, highlighting their importance in the internal stratigraphic framework of the Navajo Sandstone erg. Here we interpret facies and depositional processes of aeolian interdune deposits of the Navajo Sandstone throughout Utah, using well log, outcrop, and thin sections. Interdune deposits range in type from short lived, small ponds of predominantly reworked aeolian sediment, to comparatively long-lived oases consisting of lakes with extensive ecosystems. This project aims to increase our understanding of an important potential CO2 reservoir, and enhance understanding of stratigraphic complexity within one of the world's most significant aeolian systems.

Mahon, Elizabeth (ORCID:0000000252692454)↗

Unsteady, Transonic Flow Around Delta Wings Undergoing Coupled and Natural Modes Response: A Multidisciplinary Problem

The unsteady, three-dimensional Navier-Stokes equations coupled with the Euler equations of rigid-body dynamics are sequentially solved to simulate and analyze the aerodynamic response of a high angle of attack delta wing undergoing oscillatory motion. The governing equations of fluid flow and dynamics of the multidisciplinary problem are solved using a time-accurate solution of the laminar, unsteady, compressible, full Navier- Stokes equations with the implicit, upwind, Roe flux-difference splitting, finite-volume scheme and a four-stage Runge-Kutta scheme, respectively. The primary model under consideration consists of a 65 deg swept, sharp-edged, cropped delta wing of zero thickness at 20 deg angle of attack. In a freestream of Mach 0.85 and Reynolds number of 3.23 x 10(exp 6), the flow over the upper surface of the wing develops a complex shock system which interacts with the leading-edge primary vortices producing vortex breakdown. The effect of the oscillatory motion of the wing on the vortex breakdown and overall aerodynamic response is detailed to provide insight to the complicated physics associated with unsteady flows and the phenomenon of wing rock. Forced sinusoidal single and coupled mode rolling and pitching motion is presented for the wing in a transonic freestream. The Reynolds number, frequency of oscillation, and the phase angle are varied. Comparison between the single and coupled mode forced rolling and pitching oscillation cases illustrate the effects of coupling the motion. This investigation shows that even when coupled, forced rolling oscillation at a reduced frequency of 2(pi) eliminates the vortex breakdown which results in an increase in lift. The coupling effect for in phase forced oscillations show that the lift coefficient of the pitching-alone case and the rolling-moment coefficient of the rolling-alone case dominate the resulting response. However, with a phase lead in the pitching motion, the coupled motion results in a non-periodic response of the rolling moment. The second class of problems involve releasing the wing in roll to respond to the flowfield. Two models of sharp-edged delta wings, the previous 65 deg swept model and an 80 deg swept, sharp-edged delta wing, are used to observe the aerodynamic response of a wing free to roll in a transonic and subsonic freestream, respectively. These cases demonstrate damped oscillations, self-sustained limit cycle oscillations, and divergent rolling oscillations. Ultimately, an active control model using a mass injection system was applied on the surface of the wing to suppress the self-sustained limit cycle oscillation known as wing rock. Comparisons with experimental investigations complete this study, validating the analysis and illustrating the complex details afforded by computational investigations.

Menzies, Margaret Anne↗

Time-Lapse Gravity Monitoring of CO2 Migration Based on Numerical Modeling of a Faulted Storage Complex

In this study, the performance of both surface and borehole time-lapse gravity monitoring to detect CO2 leakage from a carbon storage site is evaluated. Several hypothetical scenarios of CO2 migration in a leaky fault, and thief zones at different depths at the Kimberlina site (California, USA) constitute the basis of the approach. The CO2 displacement is simulated using the TOUGH2 simulator applied to a detailed geological model of the site. The gravity responses to these CO2 plumes are simulated using forward modeling with sensors at ground surface and in vertical boreholes. Results of inversion on one scenario are also presented. The surface-based gravity responses obtained for the different leakage scenarios demonstrate that leakage can be detected at the surface in all the scenarios but the time to detection is highly variable (10 to 40 years) and dependent on the detection threshold considered. Borehole measurements of the vertical component of gravity provide excellent constrains in depth when they are located in proximity of the density anomaly associated with the presence of CO2, thus discriminating multiple leaks in different thief zones. Joint inversion of surface and borehole data can bring valuable information of the occurrence of leakages and their importance by providing a reasonable estimate of mass of displaced fluids. This study demonstrates the importance of combining multiphase flow simulations with gravity modeling in order to define if and when gravity monitoring would be applicable at a given storage site.

Time-lapse gravity monitoring, leak detection, CCS↗

A computational approach to complex junctions and interfaces

Molecular- and nano- junctions, surfaces, interfaces, and interfacial processes have been the subjects of this DOE supported program for about 20 years. We have investigated electronic and magnetic structure, spin-dependent charge transport, and emerging phenomena at surfaces and interfaces in a number of physical systems ranging from nano-clusters, to nanowires, to two-dimensional (2D) crystals and their interactions, to bulk matter. Eighty-four refereed papers were published [1-84], with a majority effort from the group led by the PI, and over a hundred presentations were made at international conferences. We use first-principles methods in the framework of density functional theory in conjunction with nano-equilibrium Green function techniques, semi-empirical Boltzmann transport theory, tight-binding models, and the Hubbard model and many-body wavefunction approaches. In pursuing our scientific goals, we have also developed a number of computational algorithms and computational packages.

2D materials↗

A first-order time-domain Green's function approach to supersonic unsteady flow

A time-domain Green's Function Method for unsteady supersonic potential flow around complex aircraft configurations is presented. The focus is on the supersonic range wherein the linear potential flow assumption is valid. The Green's function method is employed in order to convert the potential-flow differential equation into an integral one. This integral equation is then discretized, in space through standard finite-element technique, and in time through finite-difference, to yield a linear algebraic system of equations relating the unknown potential to its prescribed co-normalwash (boundary condition) on the surface of the aircraft. The arbitrary complex aircraft configuration is discretized into hyperboloidal (twisted quadrilateral) panels. The potential and co-normalwash are assumed to vary linearly within each panel. Consistent with the spatial linear (first-order) finite-element approximations, the potential and co-normalwash are assumed to vary linearly in time. The long range goal of our research is to develop a comprehensive theory for unsteady supersonic potential aerodynamics which is capable of yielding accurate results even in the low supersonic (i.e., high transonic) range.

Freedman, M. I.↗

Microwave properties of YBa2Cu3O(7-delta) high-transition-temperature superconducting thin films measured by the power transmission method

The microwave response of YBa2Cu3O(7-delta) superconducting thin films deposited on LaAlO3, MgO, YSZ, and LaGaO3 substrates are studied. It is found that the microwave transmission properties are very weakly dependent on temperature in the normal state but change drastically upon transition to the superconducting state. In particular, the transmission decreases and there is a negative phase shift with respect to the phase at room temperature when the sample is cooled through its transition temperature. The magnetic penetration depth for all the films was determined from the surface reactance of the films. The microwave complex conductivity is determined in both the normal and the superconducting state. It is observed that both sigma1 and sigma2 increase in transition to the superconducting state. The surface resistivity is calculated for all the films.

Miranda, F. A.↗