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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 199 records · Page 11
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

Different tertiary interactions create the same important 3D features in a distinct flavivirus xrRNA

During infection by a flavivirus (FV), cells accumulate noncoding subgenomic flavivirus RNAs (sfRNAs) that interfere with several antiviral pathways. These sfRNAs are formed by structured RNA elements in the 3' untranslated region (UTR) of the viral genomic RNA, which block the progression of host cell exoribonucleases that have targeted the viral RNA. Previous work on these exoribonuclease-resistant RNAs (xrRNAs) from mosquito-borne FVs revealed a specific three-dimensional fold with a unique topology in which a ring-like structure protectively encircles the 5' end of the xrRNA. Conserved nucleotides make specific tertiary interactions that support this fold. Examination of more divergent FVs reveals differences in their 3' UTR sequences, raising the question of whether they contain xrRNAs and if so, how they fold. To answer this, we demonstrated the presence of an authentic xrRNA in the 3' UTR of the Tamana bat virus (TABV) and solved its structure by X-ray crystallography. The structure reveals conserved features from previously characterized xrRNAs, but in the TABV version these features are created through a novel set of tertiary interactions not previously seen in xrRNAs. This includes two important A–C interactions, four distinct backbone kinks, several ordered Mg 2+ ions, and a C + –G–C base triple. The discovery that the same overall architecture can be achieved by very different sequences and interactions in distantly related flaviviruses provides insight into the diversity of this type of RNA and will inform searches for undiscovered xrRNAs in viruses and beyond.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

Raw electron microscopy images for "The Importance of Nano-edges in Atomic Stencilling and Chiroptically Active Assembly of Patchy Gold Tetrahedra"

This dataset contains the raw transmission electron microscopy (TEM) and scanning electron microscopy (SEM) images used in the main figures of the paper “The Importance of Nano-edges in Atomic Stencilling and Chiroptically Active Assembly of Patchy Gold Tetrahedra (2026).” All the images were acquired at the Materials Research Laboratory, University of Illinois at Urbana-Champaign, by Qian Chen group. 1. We provide five subfolders, each named according to the corresponding figure numbers in the paper. 2. All files in the subfolders for Figures 1–3 and 5 are named as "Panel [letter]_*", where [letter] (e.g., a, b, c) represents the raw images used for the corresponding panels. 3. All files in the subfolder for Figure 4 correspond to panel f and show the configurations of patchy tetrahedra synthesized at varying concentrations of iodide and 2-naphthalenethiol. They are named "Experiment_[number]", where [number] represents the corresponding data points in the phase diagram. 4. In TEM images, the bright and dark regions indicate the polymer patches and nanoparticle cores, respectively. 5. In SEM images, the bright and dark regions indicate the nanoparticle cores and polymer patches, respectively. 6. Abbreviations in file names: HAADF-STEM (high-angle annular dark-field scanning transmission electron microscopy), PINEM (photon-induced near-field electron microscopy), and RCP/LCP (left-/right-handed circularly polarized).

chirality↗
DOE OSTI2023

Demonstrating the importance of porcine reproductive and respiratory syndrome virus papain-like protease 2 deubiquitinating activity in viral replication by structure-guided mutagenesis

Deubiquitination of cellular substrates by viral proteases is a mechanism used to interfere with host cellular signaling processes, shared between members of the coronavirus- and arterivirus families. In the case of Arteriviruses, deubiquitinating and polyprotein processing activities are accomplished by the virus-encoded papain-like protease 2 (PLP2). Several studies have implicated the deubiquitinating activity of the porcine reproductive and respiratory syndrome virus (PRRSV) PLP2 in the downregulation of cellular interferon production, however to date, the only arterivirus PLP2 structure described is that of equine arteritis virus (EAV), a distantly related virus. Here we describe the first crystal structure of the PRRSV PLP2 domain both in the presence and absence of its ubiquitin substrate, which reveals unique structural differences in this viral domain compared to PLP2 from EAV. To probe the role of PRRSV PLP2 deubiquitinating activity in host immune evasion, we selectively removed this activity from the domain by mutagenesis and found that the viral domain could no longer downregulate cellular interferon production. Interestingly, unlike EAV, and also unlike the situation for MERS-CoV, we found that recombinant PRRSV carrying PLP2 DUB-specific mutations faces significant selective pressure to revert to wild-type virus in MARC-145 cells, suggesting that the PLP2 DUB activity, which in PRRSV is present as three different versions of viral protein nsp2 expressed during infection, is critically important for PRRSV replication.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2024

Understanding early HIV-1 rebound dynamics following antiretroviral therapy interruption: The importance of effector cell expansion

Most people living with HIV-1 experience rapid viral rebound once antiretroviral therapy is interrupted; however, a small fraction remain in viral remission for an extended duration. Understanding the factors that determine whether viral rebound is likely after treatment interruption can enable the development of optimal treatment regimens and therapeutic interventions to potentially achieve a functional cure for HIV-1. We built upon the theoretical framework proposed by Conway and Perelson to construct dynamic models of virus-immune interactions to study factors that influence viral rebound dynamics. We evaluated these models using viral load data from 24 individuals following antiretroviral therapy interruption. The best-performing model accurately captures the heterogeneity of viral dynamics and highlights the importance of the effector cell expansion rate. Our results show that post-treatment controllers and non-controllers can be distinguished based on the effector cell expansion rate in our models. Furthermore, these results demonstrate the potential of using dynamic models incorporating an effector cell response to understand early viral rebound dynamics post-antiretroviral therapy interruption.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2021

Data for "Soil carbon dynamics during drying vs. rewetting: Importance of antecedent moisture conditions"

This dataset contains data used for the paper "Soil carbon dynamics during drying vs. rewetting: importance of antecedent moisture conditions". The Related References field will be updated with a full citation when available.Soil moisture influences soil carbon dynamics, including microbial growth and respiration. The response of such ‘soil respiration’ to moisture changes is generally assumed to be linear and reversible, i.e. to depend only on the current moisture state. Current models thus do not account for antecedent soil moisture conditions when determining soil respiration or the available substrate pool. We conducted a laboratory incubation to determine how the antecedent conditions of drought and flood influenced soil organic matter (SOM) chemistry, bioavailability, and respiration. We sampled soils from an upland coastal forest, Beaver Creek, WA USA, and subjected them to drying and rewetting treatments. For the drying treatment, field moist soils were saturated and then dried to 75, 50, 35, and 5 % saturation. In the rewetting treatment, field moist soils were air-dried and then rewet to 35, 50, 75, and 100 % saturation. We measured respiration and water extractable organic carbon (WEOC) concentrations and used 1H-NMR and FT-ICR-MS to characterize the WEOC pool across the treatments. The drying vs. wetting treatment strongly influenced SOM bioavailability, as rewet soils (with antecedent drought) had greater WEOC concentrations and respiration fluxes compared to the drying soils (with antecedent flood). In addition, air-dry soils had the highest WEOC concentrations, and the NMR-resolved peaks showed a strong contribution of protein groups in these soils. Both NMR and FT-ICR-MS analyses indicated increased contribution of complex aromatic groups/molecules in the rewet soils, compared to the drying soils. We suggest that drying introduced organic matter into the WEOC pool via desorption of aromatic molecules and/or by microbial cell lysis, and this stimulated microbial mineralization rates. Our work indicates that even short-term shifts in antecedent moisture conditions can strongly influence soil C dynamics at the core scale. The predictive uncertainties in current soil models may be reduced by a more accurate representation of soil water and C persistence that includes a mechanistic and quantitative understanding of the impact of antecedent moisture conditions.This dataset contains a compressed (.zip) archive of the data and R scripts used for this manuscript. The dataset includes files in .csv and .txt format, which can be accessed and processed using MS Excel or R. NMR data are provided as raw output data (accessed in Bruker TopSpin or MestreNova) as well as the MestreNova-processed files. This archive can also be accessed on GitHub at https://github.com/kaizadp/hysteresis_and_soil_carbon (DOI: 10.5281/zenodo.4432885).

1H-NMR↗
DOE OSTI2024

The importance of accounting for landscape position when investigating grasslands: A multidisciplinary characterisation of a Californian coastal grassland

Data from the characterisation of the Point Reyes Field Site, published in AGU Earth's Future under the title: The importance of accounting for landscape position when investigating grasslands: A multidisciplinary characterisation of a Californian coastal grassland. This paper explored the effect of landscape position on the response of a Californian grassland to seasonal changes. All files are csv files. The EMI data contains 8 csv files with a metadata csv explaining the columns. The dataset also includes soil variables including total concentrations calculated from fused samples, then dissolved and measured on ICP-AES for whole-rock elements and ICP-MS for trace elements. Mineral composition was attained using X-ray diffraction at BL 11-3 at SSRL . Data was then run through the High Score database to characterise different mineral phases. total It also includes a table with bulk soil characteristics such as soil pH, cation exchange capacity, and soil textural data. Data from Teros 12 Meter soil moisture, electrical conductivity and temperature sensors are presented in SMS Csv file. While the WL bottom and top files contain data from Piezometers measuring the ground water table. We have included a csv file that contains soil CO2 efflux data from Feb 2021-Oct 2021 in the Point Reyes Grassland Experiment We have included the spatially orientated (easting northing) remotely sensed datasets that were used in the K-means clustering analysis conducted on our site with electrical conductivity, normalised difference vegetation index, elevation, slope, solar radiation, topographic position and wetness index, and a clustering score. Finally there is a list of all the identified grassland species at the site.For more information on flux data, please contact the corresponding author.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

OASIS: Optimal Analysis-Specific Importance Sampling for event generation

We propose a technique called Optimal Analysis-Specific Importance Sampling (OASIS) to reduce the number of simulated events required for a high-energy experimental analysis to reach a target sensitivity. We provide recipes to obtain the optimal sampling distributions which preferentially focus the event generation on the regions of phase space with high utility to the experimental analyses. OASIS leads to a conservation of resources at all stages of the Monte Carlo pipeline, including full-detector simulation, and is complementary to approaches which seek to speed-up the simulation pipeline.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2023

MadNIS - Neural multi-channel importance sampling

Theory predictions for the LHC require precise numerical phase-space integration and generation of unweighted events. We combine machine-learned multi-channel weights with a normalizing flow for importance sampling, to improve classical methods for numerical integration. We develop an efficient bi-directional setup based on an invertible network, combining online and buffered training for potentially expensive integrands. We illustrate our method for the Drell-Yan process with an additional narrow resonance.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2020

Composition and Dynamical Processes of Ions in Giant Magnetospheres: The Importance of In Situ Measurements for Advancing the Current Knowledge [Slides]

In this white paper, we emphasize the importance of in situ ion composition measurements provided by plasma mass spectrometers in planetary magnetospheres (Uranus and Neptune) aimed for future planetary missions. We present our current understanding on magnetospheres of Uranus and Neptune that are largely based on Plasma Science Investigation (PLS, faraday cups) and Low Energy Charged Particle (LECP) instrument on Voyager 2 and what measurements need to be made to improve it. We emphasize that the future missions equipped with plasma mass spectrometers must visit these magnetospheres again to advance our current knowledge. Finally, this white paper summarizes key science questions that needs to be addressed which all of them requires a direct ion composition measurements from a plasma spectrometer.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2021

The Importance of Ontologies to LANL’s Future Search Capabilities [Slides]

Digitizing physical archives is designed to make documents more accessible. An ontology in this context is a network of discrete concepts (things, people, places, etc.) and, importantly, the relationships that connect them. This will help both the recall and the precision of the search: being able to link to concepts I didn’t type directly into the search box will get more results from a search, while knowing how the concepts are related to each other will make it easier to filter out the stuff that isn’t actually useful. Ontologies make a database more flexible and easier for a user to actually navigate.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗
DOE OSTI2023

Renewable Thermal Energy Systems: Characterization of the Most Important Thermal Energy Applications in Buildings and Industry (Report 1)

This report is the first in a three-report series that evaluates the provision of renewable heat for industry and buildings via current and prospective renewable thermal energy system (RTES) technologies. The RTES project has undertaken initial research focused on technologies that could be suited for industrial process heat applications at different temperature levels, and, where possible, gathered performance and cost data for these technologies. This project does not directly evaluate RTES for distributed residential or commercial applications, nor does it yet include documented cases or modeling of RTES using geothermal, biomass, waste heat, renewable fuels like renewable natural gas, or hydrogen production. The three technical reports are summarized as follows: Renewable Thermal Energy Systems: Characterization of the Most Important Thermal Energy Applications in Buildings and Industry (Report 1), this report: summary of thermal demands of U.S. industry and buildings, and relevant hybrid RTES configurations; Renewable Thermal Energy Systems: Systemic Challenges and Transformational Policies (Report 2): discussion of socio-technical characteristics of RTES, innovation challenges, and supporting policies. Available at: https://www.nrel.gov/docs/fy23osti/83020.pdf; Renewable Thermal Energy Systems: Modeling Developments and Future Directions (Report 3): Energy yield and performance modeling of RTES, techno-economic analysis via case studies, and proposed development of a user decision support tool. Available at: https://www.nrel.gov/docs/fy23osti/83021.pdf.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗
DOE OSTI2026

VIC-Global Parameter Dataset Sensitivity with the Variable Infiltration Capacity Model: Evaluating the importance of dynamic land surface parameters when using the VIC-Global parameter dataset

Accurate prediction of runoff is essential to water resources management, flood risk assessment, and ecosystem protection. However, many hydrological models still have relatively substantial limitations when representing the influence of land use and land cover (LULC) on runoff generation and routing. Changes in LULC, such as deforestation, urban expansion, agricultural intensification, and wetland loss, have been shown to alter the water balance at the land surface through fundamental hydrologic processes (e.g., interception, infiltration, evapotranspiration, and soil storage). However, it remains an open question what the exact magnitude and timing of these impacts are for the spatial and temporal scales commonly used in engineering applications. In this analysis we focus on one aspect of recent LULC change for assessing human impacts, which is urbanization. Specifically we seek to determine the impacts of urbanization on the magnitude and timing of surface runoff and baseflow in HUC-12 basins in Clark County, Nevada which has experienced rapid urbanization. We use the Variable Infiltration Capacity (VIC) hydrology model with a widely used off-the-shelf dataset of land surface parameters, VIC-Global, both of which have been commonly used in the past for water and energy balance modeling for large scale hydrologic studies. We examine two scenarios where the first scenario removes all urbanized land cover and parameterizes those areas of the basins as barren or open shrubland. The second scenario tests the opposite case where all areas of the basins are classified as urban regardless of their present classification. The results from the VIC model show there is a low sensitivity for daily surface runoff between scenarios. The daily baseflow values indicate similar low sensitivity to the classification change during specific periods, but then have substantial differences during other period when large precipitation events are occurring. This is likely due to the assumed parameter values for the urban land cover classification made by the VIC-Global dataset. Using a static land cover parameterization is reasonable for large domain hydrology models that are being used for near-term planning horizons (<30 years). However, longer planning horizons where feedbacks between the atmosphere and land surface are important, especially in transient climate situations, considerations for how to update land surface parameters should be incorporated.

42 ENGINEERING↗
DOE OSTI2022

A Coarse-Grained Model of Affinity Maturation Indicates the Importance of B-Cell Receptor Avidity in Epitope Subdominance

The elicitation of broadly neutralizing antibodies (bnAbs) is a major goal in the design of vaccines against rapidly-mutating viruses. In the case of influenza, many bnAbs that target conserved epitopes on the stem of the hemagglutinin protein (HA) have been discovered. However, these antibodies are rare, are not boosted well upon reinfection, and often have low neutralization potency, compared to strain-specific antibodies directed to the HA head. Different hypotheses have been proposed to explain this phenomenon. We use a coarse-grained computational model of the germinal center reaction to investigate how B-cell receptor binding valency affects the growth and affinity maturation of competing B-cells. We find that receptors that are unable to bind antigen bivalently, and also those that do not bind antigen cooperatively, have significantly slower rates of growth, memory B-cell production, and, under certain conditions, rates of affinity maturation. The corresponding B-cells are predicted to be outcompeted by B-cells that bind bivalently and cooperatively. We use the model to explore strategies for a universal influenza vaccine, e.g., how to boost the concentrations of the slower growing cross-reactive antibodies directed to the stem. The results suggest that, upon natural reinfections subsequent to vaccination, the protectiveness of such vaccines would erode, possibly requiring regular boosts. Collectively, our results strongly support the importance of bivalent antibody binding in immunodominance, and suggest guidelines for developing a universal influenza vaccine.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2024

Cradle to grave: the importance of the fuel cycle to molten salt reactor sustainability

Advanced reactor technologies are being considered for the next-generation of nuclear power plants. These plants are designed to have a smaller footprint, run more efficiently at higher temperatures, have the flexibility to meet specific power or heating needs, and have lower construction costs. This paper offers a perspective on molten salt reactors, promoted as having a flexible fuel cycle and close-to-ambient pressure operation. A complexity introduced by reducing the reactor footprint is that it may require low-enriched fuel for efficient operation, available from enrichment of the feed salt or by reusing actinides from existing used nuclear fuel (UNF). Recycling UNF has the potential to reduce high-level waste, if done correctly. Release limits from UNF processing are stringent, and processes for waste reduction, fission gas trapping, and stable waste-form generation are not yet ready for commercial deployment. These complex processes are expensive to develop and troubleshoot because the feed is highly radioactive. Thus, fuel production and supply chain development must keep abreast of reactor technology development. Another aspect of reactor sustainability is the non-fuel waste streams that will be generated during operation and decommissioning. Some molten salt reactor designs are projected to have much shorter operational lifetimes than light-water reactors: less than a decade. A goal of the reactor sustainability effort is to divert these materials from a high-level waste repository. However, processing of reactor components should only be undertaken if it reduces waste. Economic and environmental aspects of sustainability are also important, but are not included in this perspective.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2020

Phosphoglucoisomerase Is an Important Regulatory Enzyme in Partitioning Carbon out of the Calvin-Benson Cycle

Phosphoglucoisomerase (PGI) isomerizes fructose 6-phosphate (F6P) and glucose 6-phosphate (G6P) in starch and sucrose biosynthesis. Both plastidic and cytosolic isoforms are found in plant leaves. Using recombinant enzymes and isolated chloroplasts, we have characterized the plastidic and cytosolic isoforms of PGI. We have found that the Arabidopsis plastidic PGI K m for G6P is three-fold greater compared to that for F6P and that erythrose 4-phosphate is a key regulator of PGI activity. Additionally, the K m of spinach plastidic PGI can be dynamically regulated in the dark compared to the light and increases by 200% in the dark. We also found that targeting Arabidopsis cytosolic PGI into plastids of Nicotiana tabacum disrupts starch accumulation and degradation. Our results, in combination with the observation that plastidic PGI is not in equilibrium, indicates that PGI is an important regulatory enzyme that restricts flow and acts as a one-way valve preventing backflow of G6P into the Calvin-Benson cycle. We propose the PGI may be manipulated to improve flow of carbon to desired targets of biotechnology.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Importance of the Rotational Transform for L–H Transitions in the TJ-II Stellarator

We study the effect of the rotational transform profile on the L–H confinement transitions in the neutral beam-heated plasmas in the TJ-II stellarator. The rotational transform profile in the vacuum is determined by the external coil currents but is modified by the plasma current, Ip. We find that L–H confinement transitions systematically occur when the configuration and plasma current are such that a low-order rational is placed in the plasma edge region, with a distribution centered around ρ=0.8±0.05. It is suggested that magnetohydrodynamic turbulence plays an important role in triggering the L–H transitions at TJ-II.

van Milligen, Boudewijn Philip (ORCID:000000015344↗
DOE OSTI2026

On the Importance of the Convective Urca Process in 3D Simulations of a Simmering White Dwarf

Type Ia supernovae are bright thermonuclear explosions that are important to numerous areas of astronomy. However, the origins of these events are poorly understood. One proposed setting is that of a near Chandrasekhar mass white dwarf that undergoes runaway carbon burning in the core. During the thousand years leading up to the explosion, the white dwarf undergoes a simmering phase where slow carbon burning heats the core and drives convection. A poorly understood aspect of this phase is the convective Urca process, which links convection with weak nuclear reactions. We use the low Mach number code MAESTROeX to perform full 3D simulations as is required to accurately capture the turbulent convection. We present simulations with and without the A=23 convective Urca process, which have relaxed to a steady state. We characterize the effects of the convective Urca process on the neutrino losses, the nuclear energy generation, and the convective boundary. We find that the size of the convection zone is substantially reduced by the convective Urca process, though convection still extends past the Urca shell. Our findings on the structure of the convective zone and the compositional changes can be used to inform 1D stellar models that track the longer-timescale evolution.

FOS: Physical sciences↗