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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 361 records · Page 20
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DOE OSTI2022

In Vivo Imaging of the Microglial Landscape After Whole Brain Radiation Therapy

Whole brain radiation therapy (WBRT) is an important treatment for patients with multiple brain metastases, but can also cause cognitive deterioration. Microglia, the resident immune cells of the brain, promote a proinflammatory environment and likely contribute to cognitive decline after WBRT. To investigate the temporal dynamics of the microglial reaction in individual mice to WBRT, we developed a novel in vivo experimental model using cranial window implants and longitudinal imaging.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
DOE OSTI2023

Metatranscriptomics analysis reveals a novel transcriptional and translational landscape during Middle East respiratory syndrome coronavirus infection

Among all RNA viruses, coronavirus RNA transcription is the most complex and involves a process termed “discontinuous transcription” that results in the production of a set of 3'-nested, co-terminal genomic and subgenomic RNAs during infection. While the expression of the classic canonical set of subgenomic RNAs depends on the recognition of a 6- to 7-nt transcription regulatory core sequence (TRS), here, we use deep sequence and metagenomics analysis strategies and show that the coronavirus transcriptome is even more vast and more complex than previously appreciated and involves the production of leader-containing transcripts that have canonical and noncanonical leader-body junctions. Moreover, by ribosome protection and proteomics analyses, we show that both positive- and negative-sense transcripts are translationally active. The data support the hypothesis that the coronavirus proteome is much vaster than previously noted in the literature.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

MjCyc: Rediscovering the pathway-genome landscape of the first sequenced archaeon, Methanocaldococcus (Methanococcus) jannaschii

The genome of Methanocaldococcus (Methanococcus) jannaschii DSM 2661 was the first Archaeal genome to be sequenced in 1996. Subsequent sequence-based annotation cycles led to its first metabolic reconstruction in 2005. Leveraging new experimental results and function assignments, we have now re-annotated M. jannaschii, creating an updated resource with novel information and testable predictions in a pathway-genome database available at BioCyc.org. This reannotation effort has resulted in 652 function assignments with enzyme roles, accounting for a third of the total protein-coding entries for this genome. The updated resource includes 883 reactions, 540 enzymes, and 142 individual pathways. Despite notable progress in computational genomics, more than a third of the genome remains functionally uncharacterized. The publicly available MjCyc pathway-genome database holds great potential for the wider community to conduct research on the biology of methanogenic Archaea.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Reconciliation of asynchronous satellite-based $\mathrm{NO_2}$ and $\mathrm{XCO_2}$ enhancements with mesoscale modeling over two urban landscapes

Fossil fuel carbon dioxide (CO 2ff ), the main driver of global warming and climate change, is often co-emitted with nitrogen oxides (NO x ) and precursors to ground-level ozone from anthropogenic sources like power plants or vehicles. In urban and suburban areas, satellite-based NO 2 can be used as a proxy to track the emissions of CO 2ff . Because of NO 2 ’s shorter lifetime, urban NO 2 plumes are more distinguishable from backgrounds and more sensitive to variations in emissions. However, the combination of these two gases is limited by the asynchrony among NO 2 and CO 2 monitoring satellites. We used CO 2ff simulated by the Weather Research and Forecasting model coupled with Chemistry (WRF-Chem) model to reconcile the tropospheric NO 2 vertical column density (VCD) from the Tropospheric Monitoring Instrument (TROPOMI) and column-averaged dry-air mole fractions of carbon dioxide enhancements (ΔXCO 2 ) from Orbiting Carbon Observatory 3 (OCO-3) Snapshot Area Maps (SAMs) over a multicity area, Washington D.C.-Baltimore (DC-Balt), and a basin city, Mexico City. NO 2 /CO 2ff ratios over DC-Balt are smaller than Mexico City, indicative of stricter emission restrictions, a more combustion-efficient vehicle fleet, and higher combustion efficiency due to lower altitude in DC-Balt. For single-track cases, the spatial correlations between NO 2 and ΔXCO 2 over Mexico City are stronger than DC-Balt because the NO 2 and CO 2 are mostly trapped in the valley of Mexico City, while DC-Balt is severely affected by distant sources (i.e., US East Coast cities). Using multi-track averaging, spatial correlation coefficients increase with the number of days used for averaging. The correlations reached a maximum when averaging >12 continuous images for DC-Balt and > 10 continuous images for Mexico City. This finding indicates that multi-track averaging using modeled CO 2ff as a proxy is helpful to filter the noise in single-track images, to cancel the interference from distant sources, and to magnify correlations between NO 2 and CO 2ff . Mexico City showed stronger spatial correlations but weaker temporal correlations than DC-Balt due to biomass burning hot spots and large transport errors caused by the trapping effects of the surrounding mountains. Tracking the 20-day moving average of CO 2ff emissions using TROPOMI NO 2 seems technically feasible, considering the relationship between correlation coefficients and the number of available satellite images.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

From NWChem to NWChemEx: Evolving with the Computational Chemistry Landscape

Since the advent of the first computers, chemists have been at the forefront of using computers to understand and solve complex chemical problems. As the hardware and software have evolved, so have the theoretical and computational chemistry methods and algorithms. Parallel computers clearly changed the common computing paradigm in the late 1970s and 80s, and the field has again seen a paradigm shift with the advent of graphical processing units. This review explores the challenges and some of the solutions in transforming software from the terascale to the petascale and now to the upcoming exascale computers. While discussing the field in general, NWChem and its redesign, NWChemEx, will be highlighted as one of the early codesign projects to take advantage of massively parallel computers and emerging software standards to enable large scientific challenges to be tackled.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2025

BaCu 4/3 Si 2/3 P 2 and BaCu 2–( x + y ) Zn x Si y P 2 : Expanding the Semiconducting Landscape in the ThCr 2 Si 2 -Type Family

ThCr 2 Si 2 -type layered materials are a large family of compounds with applications ranging from thermoelectricity to magnetism, with the vast majority of the members exhibiting metallic behavior. Here, in this study, we synthesized a new group of materials with Cu-Si and Cu-Zn-Si square nets with the general formula BaCu 1.33 Si 0.67 P 2 and BaCu 2–(x+y) Zn x Si y P 2 (0 ≤ x ≤ 0.9; 0.3 ≤ y ≤ 0.7). Several synthesized compounds are charge-balanced semiconductors, which are rare in the ThCr 2 Si 2 family. All the reported compounds crystallize in the ThCr 2 Si 2 -type tetragonal I4/mmm space group, with Cu/Zn/Si jointly occupying the same 4d crystallographic site. In the Zn-free composition, BaCu 1.33 Si 0.67 P 2 , Ba, and P each occupy a single crystallographic site. The introduction of Zn results in the expansion of the unit cell and splitting the Ba atomic sites along the [001] direction. Such structural displacement of the Ba atoms was confirmed by the heat capacity measurements. Band structure and density-of-states calculations on ordered hypothetical structural models reveal either a small bandgap (∼0.2 eV) or semimetallic band structures. The compounds reported here exhibit high Seebeck coefficients and ultralow thermal conductivity, making them promising candidates for the development of thermoelectric materials.

crystal structure↗