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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 235 records · Page 13

Mapping snow depth and volume at the alpine watershed scale from aerial imagery using Structure from Motion

Time series mapping of snow volume in the mountains at global scales and at resolutions needed for water resource management is an unsolved challenge to date. Snow depth mapping by differencing surface elevations from airborne lidar is a mature measurement approach filling the observation gap operationally in a few regions, primarily in mountain headwaters in the Western United States. The same concept for snow depth retrieval from stereo- or multi-view photogrammetry has been demonstrated, but these previous studies had limited ability to determine the uncertainties of photogrammetric snow depth at the basin scale. For example, assessments used non-coincident or discrete points for reference, masked out vegetation, or compared a subset of the fully snow-covered study domain. Here, using a unique data set with simultaneously collected airborne data, we compare snow depth mapped from multi-view Structure from Motion photogrammetry to that mapped by lidar at multiple resolutions over an entire mountain basin (300 km 2 ). After excluding reconstruction errors (negative depths), SfM had lower snow-covered area (~27%) and snow volume (~16%) compared to lidar. The reconstruction errors were primarily in areas with vegetation, shallow snow (< 1 m), and steep slopes (> 60°C). Across the overlapping snow extent, snow depths compared well to lidar with similar mean values (< 0.03 m difference) and snow volume (± 5%) for output resolutions of 3 m and 50 m, and with a normalized median absolute deviation of 0.19 m. Our results indicate that photogrammetry from aerial images can be applied in the mountains but would perform best for deeper snowpacks above tree line.

54 ENVIRONMENTAL SCIENCES↗

Phase-field simulations of fission gas bubble growth and interconnection in U-(Pu)-Zr nuclear fuel

Abstract The growth and interconnection of fission gas bubbles in the hotter central regions of U-(Pu)-Zr nuclear fuel has been simulated with a phase-field model. The Cahn-Hilliard equation was used to represent the two-phase microstructure, with a single defect species. The volume fraction of the bubble phase and surface area of the bubble-matrix interface were determined during growth and interconnection. Surface area increased rapidly during the initial stages of growth, then slowed and finally decreased as bubble interconnection began and coarsening acted to reduce surface area. The fraction of the bubbles vented to a simulation domain boundary, f V , was quantified as a measure of the microstructure’s interconnectivity and plotted as a function of porosity p . The defect species diffusivity was varied; although changes in diffusivity significantly affected the microstructure, the plots of f V vs. p did not change significantly. The percolation threshold p c was calculated to be approximately 0.26, depending on the assumed diffusivity and using an initial bubble number density based on experimental observations. This is slightly smaller than the percolation threshold for continuum percolation of overlapping 3D spheres. The simulation results were used to parameterize two different engineering-scale swelling models for U-(Pu)-Zr in the nuclear fuel performance code BISON.

Aagesen, Larry K. (ORCID:000000034936676X)↗

Plane Smoothers for Multiblock Grids: Computational Aspects

Standard multigrid methods are not well suited for problems with anisotropic discrete operators, which can occur, for example, on grids that are stretched in order to resolve a boundary layer. One of the most efficient approaches to yield robust methods is the combination of standard coarsening with alternating-direction plane relaxation in the three dimensions. However, this approach may be difficult to implement in codes with multiblock structured grids because there may be no natural definition of global lines or planes. This inherent obstacle limits the range of an implicit smoother to only the portion of the computational domain in the current block. This report studies in detail, both numerically and analytically, the behavior of blockwise plane smoothers in order to provide guidance to engineers who use block-structured grids. The results obtained so far show alternating-direction plane smoothers to be very robust, even on multiblock grids. In common computational fluid dynamics multiblock simulations, where the number of subdomains crossed by the line of a strong anisotropy is low (up to four), textbook multigrid convergence rates can be obtained with a small overlap of cells between neighboring blocks.

Llorente, Ignacio M.↗

Electron tomography imaging methods with diffraction contrast for materials research

Transmission electron microscopy (TEM) and scanning transmission electron microscopy (STEM) enable the visualization of three-dimensional (3D) microstructures ranging from atomic to micrometer scales using 3D reconstruction techniques based on computed tomography algorithms. This 3D microscopy method is called electron tomography (ET) and has been utilized in the fields of materials science and engineering for more than two decades. Although atomic resolution is one of the current topics in ET research, the development and deployment of intermediate-resolution (non-atomic-resolution) ET imaging methods have garnered considerable attention from researchers. This research trend is probably not irrelevant due to the fact that the spatial resolution and functionality of 3D imaging methods of scanning electron microscopy (SEM) and X-ray microscopy have come to overlap with those of ET. In other words, there may be multiple ways to carry out 3D visualization using different microscopy methods for nanometer-scale objects in materials. From the above standpoint, this review paper aims to (i) describe the current status and issues of intermediate-resolution ET with regard to enhancing the effectiveness of TEM/STEM imaging and (ii) discuss promising applications of state-of-the-art intermediate-resolution ET for materials research with a particular focus on diffraction contrast ET for crystalline microstructures (superlattice domains and dislocations) including a demonstration of in situ dislocation tomography.

36 MATERIALS SCIENCE↗

Calmodulin activation of an endoplasmic reticulum-located calcium pump involves an interaction with the N-terminal autoinhibitory domain

To investigate how calmodulin regulates a unique subfamily of Ca(2+) pumps found in plants, we examined the kinetic properties of isoform ACA2 identified in Arabidopsis. A recombinant ACA2 was expressed in a yeast K616 mutant deficient in two endogenous Ca(2+) pumps. Orthovanadate-sensitive (45)Ca(2+) transport into vesicles isolated from transformants demonstrated that ACA2 is a Ca(2+) pump. Ca(2+) pumping by the full-length protein (ACA2-1) was 4- to 10-fold lower than that of the N-terminal truncated ACA2-2 (Delta2-80), indicating that the N-terminal domain normally acts to inhibit the pump. An inhibitory sequence (IC(50) = 4 microM) was localized to a region within valine-20 to leucine-44, because a peptide corresponding to this sequence lowered the V(max) and increased the K(m) for Ca(2+) of the constitutively active ACA2-2 to values comparable to the full-length pump. The peptide also blocked the activity (IC(50) = 7 microM) of a Ca(2+) pump (AtECA1) belonging to a second family of Ca(2+) pumps. This inhibitory sequence appears to overlap with a calmodulin-binding site in ACA2, previously mapped between aspartate-19 and arginine-36 (J.F. Harper, B. Hong, I. Hwang, H.Q. Guo, R. Stoddard, J.F. Huang, M.G. Palmgren, H. Sze inverted question mark1998 J Biol Chem 273: 1099-1106). These results support a model in which the pump is kept "unactivated" by an intramolecular interaction between an autoinhibitory sequence located between residues 20 and 44 and a site in the Ca(2+) pump core that is highly conserved between different Ca(2+) pump families. Results further support a model in which activation occurs as a result of Ca(2+)-induced binding of calmodulin to a site overlapping or immediately adjacent to the autoinhibitory sequence.

NASA Program Fundamental Space Biology↗

The N-terminus of varicella-zoster virus glycoprotein B has a functional role in fusion

Varicella-zoster virus (VZV) is a medically important alphaherpesvirus that induces fusion of the virion envelope and the cell membrane during entry, and between cells to form polykaryocytes within infected tissues during pathogenesis. All members of the Herpesviridae , including VZV, have a conserved core fusion complex composed of glycoproteins, gB, gH and gL. The ectodomain of the primary fusogen, gB, has five domains, DI-V, of which DI contains the fusion loops needed for fusion function. We recently demonstrated that DIV is critical for fusion initiation, which was revealed by a 2.8Å structure of a VZV neutralizing mAb, 93k, bound to gB and mutagenesis of the gB-93k interface. To further assess the mechanism of mAb 93k neutralization, the binding site of a non-neutralizing mAb to gB, SG2, was compared to mAb 93k using single particle cryogenic electron microscopy (cryo-EM). The gB-SG2 interface partially overlapped with that of gB-93k but, unlike mAb 93k, mAb SG2 did not interact with the gB N-terminus, suggesting a potential role for the gB N-terminus in membrane fusion. The gB ectodomain structure in the absence of antibody was defined at near atomic resolution by single particle cryo-EM (3.9Å) of native, full-length gB purified from infected cells and by X-ray crystallography (2.4Å) of the transiently expressed ectodomain. Both structures revealed that the VZV gB N-terminus (aa72-114) was flexible based on the absence of visible structures in the cryo-EM or X-ray crystallography data but the presence of gB N-terminal peptides were confirmed by mass spectrometry. Notably, N-terminal residues 109 KSQD 112 were predicted to form a small α-helix and alanine substitution of these residues abolished cell-cell fusion in a virus-free assay. Importantly, transferring the 109 AAAA 112 mutation into the VZV genome significantly impaired viral propagation. These data establish a functional role for the gB N-terminus in membrane fusion broadly relevant to the Herpesviridae .

59 BASIC BIOLOGICAL SCIENCES↗

Application of homomorphic signal processing to stress wave factor analysis

The stress wave factor (SWF) signal, which is the output of an ultrasonic testing system where the transmitting and receiving transducers are coupled to the same face of the test structure, is analyzed in the frequency domain. The SWF signal generated in an isotropic elastic plate is modelled as the superposition of successive reflections. The reflection which is generated by the stress waves which travel p times as a longitudinal (P) wave and s times as a shear (S) wave through the plate while reflecting back and forth between the bottom and top faces of the plate is designated as the reflection with p, s. Short-time portions of the SWF signal are considered for obtaining spectral information on individual reflections. If the significant reflections are not overlapped, the short-time Fourier analysis is used. A summary of the elevant points of homomorphic signal processing, which is also called cepstrum analysis, is given. Homomorphic signal processing is applied to short-time SWF signals to obtain estimates of the log spectra of individual reflections for cases in which the reflections are overlapped. Two typical SWF signals generated in aluminum plates (overlapping and non-overlapping reflections) are analyzed.

Karagulle, H.↗

Application of homomorphic signal processing to stress wave factor analysis

The stress wave factor (SWF) signal, which is the output of an ultrasonic testing system where the transmitting and receiving transducers are coupled to the same face of the test structure, is analyzed in the frequency domain. The SWF signal generated in an isotropic elastic plate is modelled as the superposition of successive reflections. The reflection which is generated by the stress waves which travel P times as a longitudinal (P) wave and s times as a shear (S) wave through the plate while reflecting back and forth between the bottom and top faces of the plate is designated as the reflection with P, s. Short-time portions of the SWF signal are considered for obtaining spectral information on individual reflections. If the significant reflections are not overlapped, the short-time Fourier analysis is used. A summary of the elevant points of homomorphic signal processing, which is also called cepstrum analysis, is given. Homomorphic signal processing is applied to short-time SWF signals to obtain estimates of the log spectra of individual reflections for cases in which the reflections are overlapped. Two typical SWF signals generated in aluminum plates (overlapping and non-overlapping reflections) are analyzed.

Williams, J. H., Jr.↗

Scope and Abstraction: Two Criteria for Localized Planning

Localization is a general-purpose representational technique for partitioning problem requirements into subproblems. Localized search utilizes a partitioning by breaking the overall search space into several smaller search spaces, one for each subproblem. Unlike most methods of partitioning, localization allows for subproblems that overlap -- i.e., multiple search spaces may be involved in constructing shared pieces of the overall plan. In this paper we focus on two criteria for forming localizations: abstraction and scope. Abstraction-based localizations are motivated by activation relationships between problem requirements. In contrast, scope-based localizations are motivated by the relevance of problem requirements to specific portions of the overall plan. This paper also describes a method for automatically generating scope and abstraction-based localizations. Empirical results are provided that contrast their use in an office-building construction planning domain.

Lansky, Amy L.↗

Dopant Compensation within the Intrinsic Poly-Si Isolation Region in Poly-Si/SiOx Passivated IBC Si Solar Cells

We report on the effect of dopant compensation within intrinsic poly-Si regions between p- and n-type fingers of poly-Si/SiOx passivated interdigitated back contact (IBC) solar cells using intrinsic poly-Si as the isolation region between the doped poly-Si fingers. First, we show that dopants from the doped fingers contaminate the intrinsic gap, resulting in doping of the entire intrinsic gap and overlap of the dopant tails from each finger. Next, we show that despite this doping across the gap, shunting between the doped fingers does not occur. We show that this is a result of trap-assisted compensation creating a highly resistive intrinsic region, preventing shunt. We simulate shunt resistance across the gap based on local carrier concentration and deep trap density. We show that trap defects within the poly-Si enhance compensation between the dopant tails. We experimentally confirm these predictions by scanning spreading resistance microscopy of the gap showing ~20 um domain with resistivity ~10^7 ..omega.. cm. Additionally, Kelvin probe force microscopy are compared to finite element simulations which result in the same approximate shape for potential profile, indicating diode behavior across the isolation region. These results demonstrate the powerful effect that trap defects have within the poly-Si isolation region and suggest that precision patterning is not as essential as once thought.

dopant compensation↗

Using Geophysical Information to Investigate Subsurface Structure within the High-Hydraulic Conductivity Analysis Zone

Within the 200 East Area of the Central Plateau and southeastward toward the Columbia River, a high-hydraulic conductivity zone (HCZ) has been interpreted to extend through the 200-PO-1 and 200-BP-5 operable units on the Hanford Site. The HCZ is a controlling hydraulic feature that impacts groundwater flow out of the 200 East Area and the fate of eastwardly migrating plumes from the 200 West Area. The lateral extent of the HCZ is highly uncertain, and despite strong evidence for the existence of the HCZ based on water-level data and contaminant plume tracking, there is still a limited understanding of how to define its boundaries. To provide additional information on the nature and extent of the HCZ, three surface geophysical methods – electrical resistivity tomography (ERT), time-domain electromagnetics (TEM), and seismic methods – were used to collect data south of 200 East. In addition, existing data from 200 East, consisting of surface seismic data, a borehole check shot survey in 699-37-47A, and borehole stratigraphic interpretations, were used to aid interpretations of newly collected seismic data south of 200 East. This work presumed that the contrast in subsurface geophysical properties would be a first-order aid identifying a transmissive zone(s) within the HCZ analysis area by imaging contrasts and/or anomalies in geophysical properties. While seismic, ERT, and TEM methods have sensitivity to overlapping physical properties (porosity, moisture content, lithology), the resolution and physics used to acquire each of these datasets are different, and therefore the information can also be different. Figure S.1 shows the locations of the geophysical data considered in this report.

58 GEOSCIENCES↗

Modal Q Factor and Modal Overlap of Electrically Small Avionics Box

Estimating the electromagnetic field strength in avionics boxes and other small enclosures at the design stage requires an estimate of the Q factor of the cavity modes. When the enclosure is small, it is typically under-moded so that Q measurement techniques which are standard practice in over-moded reverberation chambers may not be a robust measure. Furthermore, practical antenna used to measure Q in a small cavity may have a strong influence on the result obtained, as reported by Tait et al, IEEE Trans. EMC 55 2 2012. This paper reports the results of testing to determine the Q factor of a small aperture enclosure, used in a statistical power balance model to predict the electric field strength. The contributors to the total Q are identified. A novel S(sub 11) curve fitting method to measure modal Q is introduced and compared with the time domain method for measuring Q.

Statistical Electromagnetics↗

Watching Polarons Move in the Energy and Frequency Domains Using Color Impedance Spectroscopy

The hybrid electronic–ionic transport property of π-conjugated polymers enables new (opto)electrochemical device constructs for energy conversion and storage and biosensing applications. One major challenge is separating the energy and frequency dependence of Faradaic events–those involving charge transfer and the redox processes of the conjugated backbone–from the non-Faradaic components, such as ionic motion. Herein, we combine optical spectroscopy with electrochemical impedance spectroscopy (EIS) to resolve the frequency response of ionic–electronic coupling as a function of electrochemical doping potential. First, using EIS, we identify two different frequency regimes resulting in potential-dependent capacitive elements on the order of ~10 μF/cm 2 in a high-frequency regime and ~50–150 μF/cm 2 in a low-frequency regime. Given the larger magnitude and greater potential dependence, we posit that polaronic motion is more likely to occur at low frequencies (<1 kHz) and overlaps with ionic motion. The use of color impedance spectroscopy (CIS) enables observation of polaronic motion with frequency modulation. We observe that higher doping potentials show a greater motion of polarons above the DC-bias baseline concentration for onset in electrochemical doping, but all potentials considered demonstrate a critical frequency at which the polaronic motion is “frozen” (~40 Hz). Furthermore, this critical information obtained from CIS in highly dielectric environments offers a unique figure of merit for future studies on electronic–ionic coupling by which to compare across polymer/electrolyte interfaces, including the role of a charge-supporting electrolyte, a solvent, and alternative Faradaic processes (e.g., electrocatalysis).

36 MATERIALS SCIENCE↗

An object-oriented approach for parallel self adaptive mesh refinement on block structured grids

Self-adaptive mesh refinement dynamically matches the computational demands of a solver for partial differential equations to the activity in the application's domain. In this paper we present two C++ class libraries, P++ and AMR++, which significantly simplify the development of sophisticated adaptive mesh refinement codes on (massively) parallel distributed memory architectures. The development is based on our previous research in this area. The C++ class libraries provide abstractions to separate the issues of developing parallel adaptive mesh refinement applications into those of parallelism, abstracted by P++, and adaptive mesh refinement, abstracted by AMR++. P++ is a parallel array class library to permit efficient development of architecture independent codes for structured grid applications, and AMR++ provides support for self-adaptive mesh refinement on block-structured grids of rectangular non-overlapping blocks. Using these libraries, the application programmers' work is greatly simplified to primarily specifying the serial single grid application and obtaining the parallel and self-adaptive mesh refinement code with minimal effort. Initial results for simple singular perturbation problems solved by self-adaptive multilevel techniques (FAC, AFAC), being implemented on the basis of prototypes of the P++/AMR++ environment, are presented. Singular perturbation problems frequently arise in large applications, e.g. in the area of computational fluid dynamics. They usually have solutions with layers which require adaptive mesh refinement and fast basic solvers in order to be resolved efficiently.

Lemke, Max↗

A single amino acid change led to structural and functional differentiation of PvHd1 to control flowering in switchgrass

Abstract Switchgrass, a forage and bioenergy crop, occurs as two main ecotypes with different but overlapping ranges of adaptation. The two ecotypes differ in a range of characteristics, including flowering time. Flowering time determines the duration of vegetative development and therefore biomass accumulation, a key trait in bioenergy crops. No causal variants for flowering time differences between switchgrass ecotypes have, as yet, been identified. In this study, we mapped a robust flowering time quantitative trait locus (QTL) on chromosome 4K in a biparental F2 population and characterized the flowering-associated transcription factor gene PvHd1, an ortholog of CONSTANS in Arabidopsis and Heading date 1 in rice, as the underlying causal gene. Protein modeling predicted that a serine to glycine substitution at position 35 (p.S35G) in B-Box domain 1 greatly altered the global structure of the PvHd1 protein. The predicted variation in protein compactness was supported in vitro by a 4 °C shift in denaturation temperature. Overexpressing the PvHd1-p.35S allele in a late-flowering CONSTANS-null Arabidopsis mutant rescued earlier flowering, whereas PvHd1-p.35G had a reduced ability to promote flowering, demonstrating that the structural variation led to functional divergence. Our findings provide us with a tool to manipulate the timing of floral transition in switchgrass cultivars and, potentially, expand their cultivation range.

59 BASIC BIOLOGICAL SCIENCES↗

Anomaly detection in the Zwicky Transient Facility DR3

We present results from applying the SNAD anomaly detection pipeline to the third public data release of the Zwicky Transient Facility (ZTF DR3). The pipeline is composed of three stages: feature extraction, search of outliers with machine learning algorithms, and anomaly identification with followup by human experts. Our analysis concentrates in three ZTF fields, comprising more than 2.25 million objects. A set of four automatic learning algorithms was used to identify 277 outliers, which were subsequently scrutinized by an expert. From these, 188 (68 per cent) were found to be bogus light curves – including effects from the image subtraction pipeline as well as overlapping between a star and a known asteroid, 66 (24 per cent) were previously reported sources whereas 23 (8 per cent) correspond to non-catalogued objects, with the two latter cases of potential scientific interest (e.g. one spectroscopically confirmed RS Canum Venaticorum star, four supernovae candidates, one red dwarf flare). Moreover, using results from the expert analysis, we were able to identify a simple bi-dimensional relation that can be used to aid filtering potentially bogus light curves in future studies. We provide a complete list of objects with potential scientific application so they can be further scrutinised by the community. These results confirm the importance of combining automatic machine learning algorithms with domain knowledge in the construction of recommendation systems for astronomy. Our code is publicly available.

79 ASTRONOMY AND ASTROPHYSICS↗

Quantitative comparison between sub-millisecond time resolution single-molecule FRET measurements and 10-second molecular simulations of a biosensor protein

Molecular Dynamics (MD) simulations seek to provide atomic-level insights into conformationally dynamic biological systems at experimentally relevant time resolutions, such as those afforded by single-molecule fluorescence measurements. However, limitations in the time scales of MD simulations and the time resolution of single-molecule measurements have challenged efforts to obtain overlapping temporal regimes required for close quantitative comparisons. Achieving such overlap has the potential to provide novel theories, hypotheses, and interpretations that can inform idealized experimental designs that maximize the detection of the desired reaction coordinate. Here, we report MD simulations at time scales overlapping with in vitro single-molecule Förster (fluorescence) resonance energy transfer (smFRET) measurements of the amino acid binding protein LIV-BP SS at sub-millisecond resolution. Computationally efficient all-atom structure-based simulations, calibrated against explicit solvent simulations, were employed for sampling multiple cycles of LIV-BP SS clamshell-like conformational changes on the time scale of seconds, examining the relationship between these events and those observed by smFRET. The MD simulations agree with the smFRET measurements and provide valuable information on local dynamics of fluorophores at their sites of attachment on LIV-BP SS and the correlations between fluorophore motions and large-scale conformational changes between LIV-BP SS domains. We further utilize the MD simulations to inform the interpretation of smFRET data, including Förster radius (R 0 ) and fluorophore orientation factor (κ 2 ) determinations. The approach we describe can be readily extended to distinct biochemical systems, allowing for the interpretation of any FRET system conjugated to protein or ribonucleoprotein complexes, including those with more conformational processes, as well as those implementing multi-color smFRET.

59 BASIC BIOLOGICAL SCIENCES↗

PII interactions with the acetyl-CoA carboxylase subunits BADC and BCCP co-regulate lipid and nitrogen metabolism in Arabidopsis

In plants, the initiation of fatty acid synthesis is catalyzed by acetyl-CoA carboxylase (ACCase), which produces malonyl-CoA. The heteromeric form of ACCase (htACCase) is a holoenzyme consisting of biotin carboxylase and carboxyltransferase sub-complexes, both of which are subject to extensive regulation. Biotin carboxylase activity is controlled in part by the presence of the catalytic biotin carboxyl carrier proteins (BCCP1/2) and/or the non-catalytic, non-biotinylated, biotin/lipoyl attachment domain-containing proteins (BADC1/2/3) that associate with backbone biotin carboxylase (BC) protein. However, the mechanisms regulating BADC and BCCP interactions with BC and, consequently, ACCase activity in planta , remain unclear. Here, we demonstrate that the Arabidopsis ( Arabidopsis thaliana ) regulatory protein PII modulates htACCase activity through independent interactions with BADC and BCCP proteins in a selective manner. Analysis of badc1 badc2 and badc1 badc3 mutant lines and the respective pii triple mutants revealed that changes in seed oil and protein accumulation of badc double mutants are PII/nitrogen dependent. Absolute quantification of htACCase subunits and PII in developing seeds suggests that Arabidopsis exerts tight regulation over individual protein stoichiometry to balance oil and protein accumulation. The effects on vegetative and seed development indicate that PII and BADC proteins have distinct yet overlapping roles in regulating plant metabolism.

Garneau, Matthew G. [Washington State Univ., Pullm↗