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At least 1,081 records · Page 60
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Hydrologic Regionalization under Data Scarcity: Implications for Streamflow Prediction

Continuous streamflow prediction is crucial in many applications of water resources planning and management. However, streamflow prediction is challenging, particularly in data-scarce regions. Here, we demonstrate an approach to regionalize the flow duration curve for predicting daily streamflow in the data-scare region of the central Himalayas. We developed a regression-based model to estimate streamflow at various segments of a flow duration curve by incorporating basin characteristics and climate variables. This study analyzes the sensitivities of proximity and characteristics between the donor (gauged) and receptor (ungauged) basins for time-series streamflow prediction. Our results show that regionalization techniques perform better in low to medium flows over high flows. Our findings are significant in the central Himalayan regional context to inform operational and management decisions in water sector projects like hydropower plants, which generally rely on low-to-medium streamflow information. Although the quantitative results are region-specific, the approach and insights are generalizable to the Himalayan region.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

A collective elastic fluctuation mechanism for decoupling and stretched relaxation in glassy colloidal and molecular liquids

We propose a microscopic theory for the decoupling of self-diffusion and structural relaxation in glass-forming liquids within the Elastically Collective Nonlinear Langevin Equation (ECNLE) activated dynamics framework. Our central hypothesis is that the heterogeneity relevant to this problem is static fluctuations of local density on the scale of 3–4 particle diameters and how this changes local packing correlations. These fluctuations modify the degree of dynamical cage expansion that mechanistically couples intracage large amplitude hopping and longer range collective elasticity in ECNLE theory. Decoupling only emerges in the deeply supercooled regime where the strongly temperature dependent elastic barrier becomes non-negligible relative to its noncooperative local analog. The theory makes predictions for various aspects of the decoupling phenomenon, including apparent fractional power law Stokes-Einstein behavior, that appear to be consistent with experiments and simulations on hard sphere fluids and molecular liquids. Of central importance is a microscopic connection between the barrier fluctuation variance and most probable barrier height. Sensible results are also obtained for the nonexponential stretching of a generic relaxation time correlation function and its temperature evolution. Nonuniversality can arise from the relative importance of the local and collective barriers (related to fragility) and the precise magnitude of the length scale that defines the transition from local cage to elastic physics. Comparison is made with a traplike model based on a Gaussian distribution of barriers.

Xie, Shi-Jie (ORCID:0000000333174720)↗
DOE OSTI2020

Extended magnetohydrodynamics simulations of thin-foil Z-pinch implosions with comparison to experiments

Cylindrical foil liners, with foil thicknesses on the order of 400 nm, are often used in university-scale Z-pinch experiments (~1 MA in 100 ns) to study physics relevant to inertial confinement fusion efforts on larger-scale facilities (e.g., the MagLIF effort on the 25-MA Z facility at Sandia National Laboratories). The use of ultrathin foil liners typically requires a central support rod to maintain the structural integrity of the liner target assembly prior to implosion. The radius of this support rod sets a limit on the maximum convergence ratio achievable for the implosion. In recent experiments with a support rod and a preimposed axial magnetic field, helical instability structures in the imploding foil plasma were found to persist as the foil plasma stagnated on the rod and subsequently expanded away from the rod. We have now used the 3D extended magnetohydrodynamics simulation code PERSEUS (which includes Hall physics) to study these experiments. The results suggest that it is the support rod which is responsible for the helical structures persisting beyond stagnation. Furthermore, we find that as the radius of the support rod decreases (i.e., as the convergence ratio increases), the integrity and persistence of the helical modes diminish. In the limit with no support rod, we find that the structure of the final stagnation column is governed by the structure of the central precursor plasma column. Furthermore, these simulation results and their comparisons to experiment are presented.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2021

The superatomic state beyond conventional magic numbers: Ligated metal chalcogenide superatoms

The field of cluster science is drawing increasing attention due to the strong size and composition-dependent properties of clusters and the exciting prospect of clusters serving as the building blocks for materials with tailored properties. However, identifying a unifying central paradigm that provides a framework for classifying and understanding the diverse behaviors is an outstanding challenge. One such central paradigm is the superatom concept that was developed for metallic and ligand-protected metallic clusters. The periodic electronic and geometric closed shells in clusters result in their properties being based on the stability they gain when they achieve closed shells. This stabilization results in the clusters having a well-defined valence allowing them to be classified as superatoms – thus, extending the periodic table to a third dimension. This perspective focuses on extending the superatomic concept to ligated metal-chalcogen clusters that have recently been synthesized in solutions and form assemblies with counterions that have wide-ranging applications. Here we illustrate that the periodic patterns emerge in the electronic structure of ligated metal-chalcogenide clusters. The stabilization gained by the closing of their electronic shells allows for the prediction of their redox properties. Further investigations reveal how the selection of ligands may control the redox properties of the superatoms. These ligated clusters may serve as chemical dopants for two-dimensional semiconductors to control their transport characteristics. Superatomic molecules of multiple metal-chalcogen superatoms allow for the formation of nano pn junctions ideal for directed transport and photon harvesting. As a result, the perspective outlines future developments, including the synthesis of magnetic superatoms.

36 MATERIALS SCIENCE↗
DOE OSTI2022

Knock-on deuteron imaging for diagnosing the morphology of an ICF implosion at OMEGA

Knock-on deuteron imaging is a new diagnostic technique that is being implemented at the OMEGA laser facility to diagnose the morphology of an inertial confinement fusion (ICF) implosion. It utilizes the fact that some of the neutrons from deuterium–tritium (DT)-fusion reactions generated in the central hot-spot of an ICF implosion elastically scatter deuterons as they traverse the surrounding shell layer. The energy of these “knock-on” deuterons depends on the scattering angle, where the most energetic deuterons are forward-scattered and probe the shape of the central hot-spot, while lower-energy deuterons are made by side-scattering or slowing down in the fuel and carry information about the distribution of the dense DT-fuel layer surrounding the hot-spot. The first proof-of-concept tests have been conducted successfully. In these tests, three penumbral imagers with different views on an implosion recorded deuterons scattered from the dense shell of DT-gas-filled deuterated plastic shell implosions with prescribed offsets. Data from these experiments are presented here, along with novel analysis techniques that iteratively reconstruct the deuteron source from the data. Reconstructed hot-spot and shell radii agree with 1D hydro simulations and indicate a P1 asymmetry in the direction of the offset. A comparison of coaxial deuteron and x-ray images suggests the presence of a mix between the hot-spot and shell on the order of 15 μm. This new diagnostic capability will allow us to study asymmetries in unprecedented detail at OMEGA.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2023

Ideal MHD induced temperature flattening in spherical tokamaks

This paper extends the analysis first presented in Jardin et al. [Phys. Rev. Lett. 128, 245001 (2022)] to more thoroughly examine the stability of spherical torus equilibrium to ideal magnetohydrodynamic (MHD) infernal modes and their nonlinear consequences. Here we demonstrate that in a 3D resistive magnetohydrodynamic (MHD) simulation of a NSTX discharge, anomalous transport can occur due to these instabilities. Here we generate a family of equilibrium of differing β and use this to show that these instabilities could explain the experimentally observed flattening of the electron temperature profile at modest β. The modes studied in this paper are found to occur with poloidal mode number m and toroidal mode number n when the ratio m/ n is in the range of 1.2–1.5, when the central safety factor is in this range or slightly lower, and when the central region has very low magnetic shear. Our analysis gives some insight as to why the unstable linear growth rates are oscillatory functions of the toroidal mode number n. We present a simulation of an initially stable configuration that passes through a stability boundary at a critical β as it is heated. We also show that a particular NSTX discharge is unstable to these modes over a timescale of several hundred ms. We conclude that these modes must be taken into account when performing predictive modeling. An appendix shows that similar modes can be found in R / a = 4 tokamaks for certain q-profiles and β values.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2023

Validation of a detonation product equation of state for an insensitive high explosive via slab geometry expansion tests

Slab expansion (SLABEX) tests are conducted to validate a process for calibrating the detonation products equation of state (EOS) of a high explosive (HE). The SLABEX tests use rectangular slabs of PBX 9502, a polymer-bonded HE formulation consisting of 95 wt.% 1,3,5-triamino-2,4,6-trinitrobenzene bound with Kel F-800, a co-polymer of chlorotrifluoroethylene and vinylidene-fluoride. Three PBX 9502 slab thicknesses are examined, each confined symmetrically by two rectangular copper (Cu) plates approximately one-tenth the thickness of the HE slab. For the duration of each experiment, the detonation flow along the central axis of the PBX 9502 slab remains two-dimensional. The lateral flow velocity component of the outer surfaces of the expanding Cu plates is measured, along with the steady axial detonation speed along the central axis of the SLABEX. Hydrodynamic simulations of the Cu plate expansion in the SLABEX geometry, driven by the energy stored in the detonation products by the detonation combustion event, are conducted using a Jones–Wilkins–Lee EOS for the detonation products. This EOS form was recently parameterized for PBX 9502 in the cylinder expansion test geometry using a newly developed calibration technique [Voelkel et al., Combust. Flame 246, 112373 (2022)]. Good agreement between the experiment and prediction is found in each SLABEX test, demonstrating that the detonation product EOS calibration technique produces EOSs that are predictive when applied to other geometries.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗
DOE OSTI2023

Flexible, integrated modeling of tokamak stability, transport, equilibrium, and pedestal physics

The STEP (Stability, Transport, Equilibrium, and Pedestal) integrated-modeling tool has been developed in OMFIT to predict stable, tokamak equilibria self-consistently with core-transport and pedestal calculations. STEP couples theory-based codes to integrate a variety of physics, including magnetohydrodynamic stability, transport, equilibrium, pedestal formation, and current-drive, heating, and fueling. The input/output of each code is interfaced with a centralized ITER-Integrated Modelling & Analysis Suite data structure, allowing codes to be run in any order and enabling open-loop, feedback, and optimization workflows. This paradigm simplifies the integration of new codes, making STEP highly extensible. STEP has been verified against a published benchmark of six different integrated models. Core-pedestal calculations with STEP have been successfully validated against individual DIII-D H-mode discharges and across more than 500 discharges of the H98,y2 database, with a mean error in confinement time from experiment less than 19%. STEP has also reproduced results in less conventional DIII-D scenarios, including negative-central-shear and negative-triangularity plasmas. Predictive STEP modeling has been used to assess performance in several tokamak reactors. Simulations of a high-field, large-aspect-ratio reactor show significantly lower fusion power than predicted by a zero-dimensional study, demonstrating the limitations of scaling-law extrapolations. STEP predictions have found promising scenarios for an EXhaust and Confinement Integration Tokamak Experiment, including a high-pressure, 80%-bootstrap-fraction plasma. ITER modeling with STEP has shown that pellet fueling enhances fusion gain in both the baseline and advanced-inductive scenarios. Finally, STEP predictions for the SPARC baseline scenario are in good agreement with published results from the physics basis.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2024

Case study of a bore wind-ramp event from lidar measurements and HRRR simulations over ARM Southern Great Plains

The rapid change of wind speed and direction on 21 August 2017 is studied using Doppler lidar measurements at five sites of the Atmospheric Radiation Measurement (ARM) Southern Great Plains (SGP) facility in north-central Oklahoma. The Doppler lidar data were investigated along with meteorological variables such as temperature, humidity, and turbulence available from the large suite of instrumentation deployed at the SGP Central Facility (C1) during the Land-Atmosphere Feedback Experiment in August 2017. Lidar measurements at five sites, separated by 55-70 km, allowed us to document the development and evolution of the wind flow over the SGP area, examine synoptic conditions to understand the mechanism that leads to the ramp event, and estimate the ability of the High-Resolution Rapid Refresh model to reproduce this event. The flow feature in question is an atmospheric bore, a small-scale phenomenon that is challenging to represent in models, that was generated by a thunderstorm outflow northwest of the ARM SGP area. The small-scale nature of bores, its impact on power generation, and the modeling challenges associated with representing bores are discussed in this paper. In conclusion, the results also provide information about model errors between sites of different surface and vegetation types.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Mitigation of deceleration-phase Rayleigh–Taylor instability growth in inertial confinement fusion implosions

Rayleigh–Taylor growth during shell deceleration is one of the main limiting factors for target performance in inertial confinement fusion implosions. Here, using analytical scaling laws and hydrodynamic simulations, we show that such amplification can be mitigated by reducing the initial mass density in the central target region. The perturbation growth reduction is caused by a smaller hot-spot convergence ratio during deceleration, increased density scale length, and enhanced ablation stabilization. The required central density reduction can be achieved using the dynamic shell formation concept.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2024

Wave steepening and shock formation in ultracold neutral plasmas

We present observations of wave steepening and signatures of shock formation during expansion of ultracold neutral plasmas formed with an initial density distribution that is centrally peaked and decays exponentially with distance. The plasma acceleration and velocity decrease at large distance from the plasma center, leading to central ions overtaking ions in the outer regions and the development of a steepening front that is narrow compared to the size of the plasma. The density and velocity change dramatically across the front, and significant heating of the ions is observed in the region of steepest gradients. For a reasonable estimate of electron temperature, the relative velocity of ions on either side of the front modestly exceeds the local sound speed (Mach number M≳1). This indicates that by sculpting steep density gradients, it is possible to create the conditions for shock formation, or very close to it, opening a new avenue of research for ultracold neutral plasmas.

Computational fluid dynamics↗
DOE OSTI2021

Soil metabolome response to whole-ecosystem warming at the Spruce and Peatland Responses under Changing Environments experiment

In this study, a suite of complementary environmental geochemical analyses, including NMR and gas chromatography-mass spectrometry (GC-MS) analyses of central metabolites, Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) of secondary metabolites, and lipidomics, was used to investigate the influence of organic matter (OM) quality on the heterotrophic microbial mechanisms controlling peatland CO2, CH4, and CO2:CH4 porewater production ratios in response to climate warming. Our investigations leverage the Spruce and Peatland Responses under Changing Environments (SPRUCE) experiment, where air and peat warming were combined in a whole-ecosystem warming treatment. We hypothesized that warming would enhance the production of plant-derived metabolites, resulting in increased labile OM inputs to the surface peat, thereby enhancing microbial activity and greenhouse gas production. Because shallow peat is most susceptible to enhanced warming, increases in labile OM inputs to the surface, in particular, are likely to result in significant changes to CO2 and CH4 dynamics and methanogenic pathways. In support of this hypothesis, significant correlations were observed between metabolites and temperature consistent with increased availability of labile substrates, which may stimulate more rapid turnover of microbial proteins. An increase in the abundance of methanogenic genes in response to the increase in the abundance of labile substrates was accompanied by a shift toward acetoclastic and methylotrophic methanogenesis. Our results suggest that as peatland vegetation trends toward increasing vascular plant cover with warming, we can expect a concomitant shift toward increasingly methanogenic conditions and amplified climate–peatland feedbacks.

Wilson, Rachel M.↗
DOE OSTI2020

Assessment of enzyme active site positioning and tests of catalytic mechanisms through X-ray–derived conformational ensembles

How enzymes achieve their enormous rate enhancements remains a central question in biology, and our understanding to date has impacted drug development, influenced enzyme design, and deepened our appreciation of evolutionary processes. While enzymes position catalytic and reactant groups in active sites, physics requires that atoms undergo constant motion. Numerous proposals have invoked positioning or motions as central for enzyme function, but a scarcity of experimental data has limited our understanding of positioning and motion, their relative importance, and their changes through the enzyme’s reaction cycle. To examine positioning and motions and test catalytic proposals, we collected “room temperature” X-ray crystallography data for Pseudomonas putida ketosteroid isomerase (KSI), and we obtained conformational ensembles for this and a homologous KSI from multiple PDB crystal structures. Here, ensemble analyses indicated limited change through KSI’s reaction cycle. Active site positioning was on the 1- to 1.5-Å scale, and was not exceptional compared to noncatalytic groups. The KSI ensembles provided evidence against catalytic proposals invoking oxyanion hole geometric discrimination between the ground state and transition state or highly precise general base positioning. Instead, increasing or decreasing positioning of KSI’s general base reduced catalysis, suggesting optimized Ångstrom-scale conformational heterogeneity that allows KSI to efficiently catalyze multiple reaction steps. Ensemble analyses of surrounding groups for WT and mutant KSIs provided insights into the forces and interactions that allow and limit active-site motions. Most generally, this ensemble perspective extends traditional structure–function relationships, providing the basis for a new era of “ensemble–function” interrogation of enzymes.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Intracellular pathways for lignin catabolism in white-rot fungi

White-rot fungi, the most efficient organisms at breaking down lignin from wood in Nature, utilize lignin degradation products as a carbon source. 15 Lignin is a biopolymer found in plant cell walls that accounts for 30% of the organic carbon in the biosphere. White-rot fungi (WRF) are considered the most efficient organisms at degrading lignin in Nature. While lignin depolymerization by WRF has been exhaustively studied, the possibility that WRF are able to utilize lignin as a carbon source is still a matter of controversy. Here we employ 13C-labeling and systems biology approaches to demonstrate that two WRF, Trametes versicolor and Gelatoporia subvermispora, funnel lignin-derived aromatic compounds into central carbon metabolism via intracellular catabolic pathways. These results provide insights into global carbon cycling in 20 soil ecosystems, and furthermore establishes a foundation for employing WRF in simultaneous lignin depolymerization and bioconversion to bioproducts – a key step towards enabling a sustainable bioeconomy.

Del Cerro, Carlos↗
DOE OSTI2021

Molecular mechanisms of assembly and TRIP13-mediated remodeling of the human Shieldin complex

The Shieldin complex, composed of REV7, SHLD1, SHLD2, and SHLD3, protects DNA double-strand breaks (DSBs) to promote nonhomologous end joining. The AAA + ATPase TRIP13 remodels Shieldin to regulate DNA repair pathway choice. Here we report crystal structures of human SHLD3–REV7 binary and fused SHLD2–SHLD3–REV7 ternary complexes, revealing that assembly of Shieldin requires fused SHLD2–SHLD3 induced conformational heterodimerization of open (O-REV7) and closed (C-REV7) forms of REV7. We also report the cryogenic electron microscopy (cryo-EM) structures of the ATPγS-bound fused SHLD2–SHLD3–REV7–TRIP13 complexes, uncovering the principles underlying the TRIP13-mediated disassembly mechanism of the Shieldin complex. We demonstrate that the N terminus of REV7 inserts into the central channel of TRIP13, setting the stage for pulling the unfolded N-terminal peptide of C-REV7 through the central TRIP13 hexameric channel. The primary interface involves contacts between the safety-belt segment of C-REV7 and a conserved and negatively charged loop of TRIP13. This process is mediated by ATP hydrolysis-triggered rotatory motions of the TRIP13 ATPase, thereby resulting in the disassembly of the Shieldin complex.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Green diatom mutants reveal an intricate biosynthetic pathway of fucoxanthin

Fucoxanthin is a major light-harvesting pigment in ecologically important algae such as diatoms, haptophytes, and brown algae (Phaeophyceae). Therefore, it is a major driver of global primary productivity. Species of these algal groups are brown colored because the high amounts of fucoxanthin bound to the proteins of their photosynthetic machineries enable efficient absorption of green light. While the structure of these fucoxanthin-chlorophyll proteins has recently been resolved, the biosynthetic pathway of fucoxanthin is still unknown. Here, we identified two enzymes central to this pathway by generating corresponding knockout mutants of the diatom Phaeodactylum tricornutum that are green due to the lack of fucoxanthin. Complementation of the mutants with the native genes or orthologs from haptophytes restored fucoxanthin biosynthesis. We propose a complete biosynthetic path to fucoxanthin in diatoms and haptophytes based on the carotenoid intermediates identified in the mutants and in vitro biochemical assays. It is substantially more complex than anticipated and reveals diadinoxanthin metabolism as the central regulatory hub connecting the photoprotective xanthophyll cycle and the formation of fucoxanthin. Moreover, our data show that the pathway evolved by repeated duplication and neofunctionalization of genes for the xanthophyll cycle enzymes violaxanthin de-epoxidase and zeaxanthin epoxidase. Brown algae lack diadinoxanthin and the genes described here and instead use an alternative pathway predicted to involve fewer enzymes. Our work represents a major step forward in elucidating the biosynthesis of fucoxanthin and understanding the evolution, biogenesis, and regulation of the photosynthetic machinery in algae.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Behavioral resilience via dynamic circuit firing homeostasis

Homeostatic regulation ensures stable neural circuit output under changing conditions. We find that in Drosophila larvae, either presynaptic weakening due to perturbation of transmitter release or postsynaptic weakening due to perturbation of glutamate receptors at synapses between motor neuron (MN) and muscle has little impact on locomotion, suggesting a nonsynaptic compensatory mechanism. In vivo imaging shows that five different forms of synaptic weakening increase the duration of activity bouts in type I MNs. Strikingly, this compensation is input selective: occurring only in the tonic type Ib MN, not the phasic type Is MN that innervates the same muscle. Moreover, an inhibitory class of central pre-MNs that innervates the tonic—but not phasic—input decreases in activity. The adjustment in activity occurs remarkably quickly: within minutes of synapse perturbation. We propose that MN firing is dynamically regulated by two coordinated mechanisms: a cell-autonomous adjustment of MN excitability and a circuit adjustment of inhibitory central drive. The input selectivity of this process suggests homeostatic adjustment to maintain tonic drive but hold constant the phasic drive that organizes locomotory wave patterns.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

The GRAS protein RAM1 interacts with WRI transcription factors to regulate plant genes required for arbuscule development and function

During arbuscular mycorrhiza (AM) symbiosis AM fungi form tree-shaped structures called arbuscules in root cortex cells of host plants. Arbuscules and their host cells are central for reciprocal nutrient exchange between the symbionts.REQUIRED FOR ARBUSCULAR MYCORRHIZATION1(RAM1) encodes a GRAS protein crucial for transcriptionally regulating plant genes needed for arbuscule development and nutrient exchange. Similar to other GRAS proteins, RAM1 likely does not bind to DNA and how RAM1 activates its target promoters remained elusive. Here, we demonstrate that RAM1 interacts with five AM-induced APETALA 2 (AP2) transcription factors of the WRINKLED1-like family called CTTC MOTIF-BINDING TRANSCRIPTION FACTOR1 (CBX1), WRI3, WRI5a, WRI5b, and WRI5c via a C-terminal domain containing the M2/M2a motif. This motif is conserved and enriched in WRI proteins encoded by genomes of AM-competent plants. RAM1 together with any of these WRI proteins activates the promoters of genes required for symbiotic nutrient exchange, namelyRAM2,STUNTED ARBUSCULES (STR),andPHOSPHATE TRANSPORTER 4 (PT4), inNicotiana benthamianaleaves. This activation as well as target promoter induction inLotus japonicushairy roots depends onMYCS(MYCORRHIZA SEQUENCE)-elements andAW-boxes, previously identified as WRI-binding sites. TheWRIgenes are activated in two waves: Transcription ofRAM1,CBX1,andWRI3is coregulated by calcium- and calmodulin-dependent protein kinase-activated CYCLOPS, through theAMCYC-REin their promoter, and DELLA, whileWRI5a,b,andcpromoters containMYCS-elements andAW-boxes and can be activated by RAM1 heterocomplexes with CBX1 or WRI3. We propose that RAM1 provides an activation domain to DNA-binding WRI proteins to activate genes with central roles in AM development and function.

Science & Technology - Other Topics↗