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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 325 records · Page 18
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

Biases in genome reconstruction from metagenomic data

Background Advances in sequencing, assembly, and assortment of contigs into species-specific bins has enabled the reconstruction of genomes from metagenomic data (MAGs). Though a powerful technique, it is difficult to determine whether assembly and binning techniques are accurate when applied to environmental metagenomes due to a lack of complete reference genome sequences against which to check the resulting MAGs. Methods We compared MAGs derived from an enrichment culture containing ~20 organisms to complete genome sequences of 10 organisms isolated from the enrichment culture. Factors commonly considered in binning software—nucleotide composition and sequence repetitiveness—were calculated for both the correctly binned and not-binned regions. This direct comparison revealed biases in sequence characteristics and gene content in the not-binned regions. Additionally, the composition of three public data sets representing MAGs reconstructed from the Tara Oceans metagenomic data was compared to a set of representative genomes available through NCBI RefSeq to verify that the biases identified were observable in more complex data sets and using three contemporary binning software packages. Results Repeat sequences were frequently not binned in the genome reconstruction processes, as were sequence regions with variant nucleotide composition. Genes encoded on the not-binned regions were strongly biased towards ribosomal RNAs, transfer RNAs, mobile element functions and genes of unknown function. Our results support genome reconstruction as a robust process and suggest that reconstructions determined to be >90% complete are likely to effectively represent organismal function; however, population-level genotypic heterogeneity in natural populations, such as uneven distribution of plasmids, can lead to incorrect inferences.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Two Delayed Critical 15-Inch-Diameter Interacting Enriched (93.14) Uranium Metal Cylinders without Moderator and Reflector

This report documents very accurately the configuration and the materials for experiments with two unmoderated, unreflected, interacting, coaxial, highly enriched, 15-in.-diameter, uranium metal cylinders performed at the Oak Ridge Critical Experiments Facility (ORCEF) in May to Aug 1963 and described in logbook E-19 and E -20 associated with experiments in the East cell of ORCEF. Measurements were also performed in April and May of 1965 and described in logbooks E-22 and E-23 The information is sufficiently accurate that it can be used as the basis for preparation of benchmarks for International Criticality Safety Benchmark Program (ICSBEP) at Idaho National laboratory. The thickness of the cylinders was varied and the spacing between them was adjusted to achieve a delayed critical configuration. The average enrichment of the uranium metal was 94.14 wt. % 235 U. The heights of the 15-in.-diameter, equal-height cylinders varied from 1-5/8 to 3.0-inches. All interacting cylinders were assembled coaxially with their flat faces parallel and their combined masses varied between 182 and 325 kilograms of HEU metal. The data from these 12 experiments described would be acceptable for use as criticality safety benchmark experiments for the ICSBEP and EURATOM’s Nuclear Energy Agency nuclear criticality safety benchmark program, once the uncertainty analysis is completed. Based on previous ICSBEP benchmarks with this enriched uranium metal at ORCEF, it is expected that the uncertainties in k eff could be as low as ± 0.0002.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2026

Evaluation of Sandia NCS Benchmark Suite Updates

The Sandia Nuclear Criticality Safety (NCS) program’s benchmark suite was recently updated. This suite is used to ensure that NCS calculations using computer-based neutron transportation codes have an established baseline comparison of calculated versus known experimental results. The Evaluated Nuclear Data File (ENDF) version used for the MCNP models in the suite was changed from ENDF/B-VII.1 to ENDF/B-VIII.0. Additionally, relevant thermal scattering law data libraries (TSLs) were updated. The sensitivity of the calculational bias of each benchmark model to these changes is discussed. Implementation of the ENDF/B-VIII.0 library and updated TSLs results in improvements to bias distribution in the intermediate enriched uranium, plutonium, and mixed uranium–plutonium (IEU, PU, and MIX) fissionable material benchmark categories, but a small bias increase in low- and high-enriched uranium categories (LEU and HEU, respectively). The results also highlight the sensitivity of the benchmarks, with average lethargy of neutrons causing fission energies (EALF) in the intermediate energy range to ENDF/B library changes. The most numerous bias changes were observed in the thermal energy region when transitioning from ENDF/B-VII.1 to ENDF/B-VIII.0. In conclusion, most of the unique bias changes observed in MCNP 6.3.0 between the two nuclear data libraries were in the LEU-COMP-THERM evaluation subset.

ICSBEP↗
DOE OSTI2022

Space flight associated changes in astronauts’ plasma-derived small extracellular vesicle microRNA: Biomarker identification

This pilot study suggests relatively short (median 12 days long) low-Earth orbit (LEO) spaceflight induces changes in circulating plasma small extracellular vesicle (sEV) microRNA expression. Normalization of small RNA sequencing (sRNAseq) data and quantitative polymerase chain reaction (qPCR) validation confirmed miR-4732-3p is significantly upregulated up to 3 days post-landing, and enrichment analysis suggests this miRNA is expressed in various central nervous system tissues and hematopoietic cells and may be linked to different organ disorders.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2024

Local convergence analysis of an inexact trust-region method for nonsmooth optimization

In Baraldi, we introduced an inexact trust-region algorithm for minimizing the sum of a smooth nonconvex function and a nonsmooth convex function in Hilbert space—a class of problems that is ubiquitous in data science, learning, optimal control, and inverse problems. Furthermore, this algorithm has demonstrated excellent performance and scalability with problem size. In this paper, we enrich the convergence analysis for this algorithm, proving strong convergence of the iterates with guaranteed rates. In particular, we demonstrate that the trust-region algorithm recovers superlinear, even quadratic, convergence rates when using a second-order Taylor approximation of the smooth objective function term.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2026

Reduced methane emissions in transgenic rice genotypes are associated with altered rhizosphere microbial hydrogen cycling

Rice paddies significantly contribute to atmospheric methane (CH 4 ). Here, we show that two independent rice genotypes overexpressing genes for PLANT PEPTIDES CONTAINING SULFATED TYROSINE (PSY) reduce cumulative CH 4 emissions by 38% (PSY1) and 58% (PSY2) over 70 days of growth compared with controls. Genome-resolved metatranscriptomic data from PSY rhizosphere soils reveal lower ratios of gene activities for (mostly hydrogenotrophic) CH 4 production versus consumption, decreased activity of H 2 -producing genes, and increased activity of bacterial H 2 oxidation pathways. Metabolic modeling using metagenomic and metabolomic data predicts elevated H 2 oxidation and suppressed H 2 production in the PSY rhizosphere. Assembled genomes of rhizosphere H 2 -oxidizing bacteria are enriched in genes utilizing gluconeogenic acids compared with H 2 -producing counterparts, and their activities are likely stimulated by elevated levels of gluconeogenic acids, primarily amino acids, in PSY root exudates. Overall, our study indicates that decreased CH 4 emissions are due to a lower amount of H 2 available for hydrogenotrophic methanogenesis and provides a powerful strategy to mitigate CH 4 emissions from increasingly widespread rice cultivation.

Biological and medical sciences↗
DOE OSTI2022

Expanded Validation of Uranium Systems with the KENO Monte Carlo Codes and SCALE 6.2.4 [Slides]

There is likely a trend in bias for uranium-fueled systems as a function of spectrum, but probably not as a function of enrichment. Some enrichment trends appear, but are potentially the result of outlier experimental results; further investigation is needed where possible. There are good examples in this data of markedly different biases from different systems. Future work includes review and vetting for inclusion in the VALID library and analysis with TSUNAMI.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2022

Estimating β eff from static, late-time Feynman neutron noise measurements

The effective delayed neutron fraction, β eff , is a kinematic parameter describing the contribution of delayed neutrons to the effective multiplication factor, $\kappa$ eff , and is of great interest to the nuclear criticality safety community and beyond. In fact, $\kappa$ eff presently must be inferred (as opposed to directly measured) since variables like β eff must be obtained from simulation, reference tables, or a dynamic or pulsed measurement where the assembly of fissile material is perturbed and not in steady state. Several recent works have proposed neutron noise techniques to estimate β eff from static measurements (such as benchmark experiments). This work experimentally investigates an approach based on looking at late-time (up to thousands of seconds) correlated neutrons in Feynman histograms. This work utilizes measurements of weapons grade plutonium and highly enriched uranium to construct late-time Feynman histograms and investigate a proposed methodology of estimating β eff from a fit of the distribution. Data is shown from both He-3 detectors and an organic scintillator array. This work is preliminary in nature, demonstrating some experimental feasibility and proposing improvements for future investigations.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2020

Three Delayed Critical 15-Inch-Diameter Interacting Enriched (93.14) Uranium Metal Cylinders Without Moderator and Reflector

This report documents very accurately the configuration and the materials for experiments with three unmoderated, unreflected, interacting, coaxial, highly enriched, 15-in.-diameter, uranium metal cylinders performed at the Oak Ridge Critical Experiments Facility (ORCEF) in August and September 1963 and described in logbook E 20 associated with experiments in the East cell of ORCEF. The information is sufficiently accurate that it can be used as the basis for preparation of benchmarks for International Criticality Safety Benchmark Program (ICSBEP) at Idaho National laboratory. The thickness of the cylinders was varied and the spacing between them was adjusted to achieve a delayed critical configuration. The average enrichment of the uranium metal was 94.14 wt. % 235U. The heights of the 15-in.-diameter, equal-height cylinders varied from 1-1/8to 2.00 inches. All interacting cylinders were assembled coaxially with their flat faces parallel and their combined masses varied between 182 and 325 kilograms of HEU metal. The data from these six experiments described are judged to be acceptable for use as criticality safety benchmark experiments for the ICSBEP and EURATOM’s Nuclear Energy Agency nuclear criticality safety benchmark program, once the uncertainty analysis is completed. Based on previous ICSBEP benchmarks with this enriched uranium metal at ORCEF, it is expected that the uncertainties in measured keff could be as low as ± 0.0002.

36 MATERIALS SCIENCE↗
DOE OSTI2026

Leafweb: Leaf Gas Exchange and Pulse-Amplitude Modulated Fluorometry for C4 Species, June 2026 Release

This dataset contains leaf gas exchange and Pulse-Amplitude Modulated (PAM) fluorometry for 98 C4 species. The C4 photosynthetic pathway employs specialized CO2 concentration mechanisms and Kranz anatomy to enrich CO2 concentration around Rubisco, the enzyme that catalyzes carbon fixation in the Calvin-Benson cycle to suppress photorespiration and increase the use efficiencies of light, nitrogen, and water as compared to the C3 photosynthetic pathways. Large-scale C4 photosynthetic datasets are relatively scarce, which has affected C4 photosynthesis research. To improve C4 photosynthetic data availability, Leafweb organized an effort to systematically collect, compile, standardize, and organize measurements of leaf gas exchange and/or Pulse-Amplitude Modulated (PAM) fluorometry of C4 species. This derived a C4 photosynthetic dataset containing measurements made by independent researchers in multiple countries in various environments (field, garden, or greenhouse). It covers three biochemical subtypes – the nicotinamide adenine dinucleotide phosphate-malic enzyme (NADP-ME), nicotinamide adenine dinucleotide-malic enzyme (NAD-ME), and phosphoenolpyruvate carboxykinase (PEP-CK) subtypes. This dataset is useful for using Artificial Intelligence / Machine Learning and mechanistic models to study C4 photosynthesis and compare across different biochemical subtypes. This dataset contains 3 compressed (*.zip) folders containing 1,892 data files in comma-separate values (*.csv) format. Additional metadata are provided: one data dictionary and a file-level metadata file in comma-separate values (*.csv) format and a user guide in PDF (*.pdf) format.

Zhou, Haoran [Tianjin University, China]↗
DOE OSTI2021

Nuclear Science for the Manhattan Project and Comparison to Today’s ENDF Data

Nuclear physics advances in the United States and Britain from 1939 to 1945 are described. The Manhattan Project’s work led to an explosion in our knowledge of nuclear science. A conference in April 1943 at Los Alamos provided a simple formula used to compute critical masses and laid out the research program needed to determine the key nuclear constants. In short order, four university accelerators were disassembled and reassembled at Los Alamos, and methods were established to make measurements on extremely small samples owing to the initial lack of availability of enriched 235U and plutonium. I trace the program that measured fission cross sections, fission-emitted neutron multiplicities and their energy spectra, and transport cross sections, comparing the measurements with our best understanding today as embodied in the Evaluated Nuclear Data File ENDF/B-VIII.0. The large nuclear data uncertainties at the beginning of the project, which often exceeded 25% to 50%, were reduced by 1945 often to less than 5% to 10%. Uranium-235 and plutonium-239 fission cross-section assessments in the fast mega-electron-volt range were reduced following more accurate measurements, and the neutron multiplicity $\overline{v}$ increased. By a lucky coincidence of canceling errors, the initial critical mass estimates were close to the final estimated masses. Some images from historical documents from our Los Alamos archives are shown. Many of the original measurements from these early years have not previously been widely available. Through this work, these data have now been archived in the international experimental nuclear reaction data library (EXFOR) in a collaboration with the International Atomic Energy Agency and Brookhaven National Laboratory.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2026

Satellite Metallicity Enhancement I: Suppressed Star Formation, Stellar Mass Loss, and Enriched Inflow of DESI and EAGLE Galaxies around Massive Clusters

Environmental effects are a primary driver of elevated gas-phase metallicities in galaxies around massive clusters, but the underlying physical mechanisms for this satellite metallicity enhancement (SME) are still unclear. Using the Dark Energy Spectroscopic Instrument (DESI) Data Release 1, we present the first measurement of the average SME as a function of projected cluster-centric distance. The resulting profile reveals three distinct regimes: a steep decline from the cluster center, a plateau near the cluster boundary, and an extended downturn across several cluster radii. Remarkably, the complex shape and amplitude of this observed SME profile are successfully reproduced in the EAGLE cosmological simulation. Drawing insights from EAGLE, we develop a novel satellite chemical evolution model to decompose the observed SME into physical contributions from suppressed star formation, stellar mass loss, and enriched gas inflow. Our analysis shows that continuous accretion of enriched intracluster medium dominates the SME plateau within the cluster virial radius, while mass loss and quenching jointly drive the rapid metallicity decline in the cluster core. Our method disentangles the impacts of three environmental processes on galactic chemical enrichment in the cosmic web, providing a powerful framework for understanding cluster galaxy evolution with current and future spectroscopic surveys.

Lin, Yuanye [Shanghai Jiao Tong U.; Shanghai Jiaot↗
DOE OSTI2024

Leveraging BERT and Network-Based Attention Analysis for Identifying Treatment Milestones in EHRs

This study introduces a sophisticated data-driven framework for analyzing Electronic Health Records (EHRs) using transformer-based models to identify and disentangle overlapping treatment contexts. The framework leverages a preprocessing pipeline that transforms structured procedural codes into semantically enriched descriptive text, enabling the use of attention mechanisms to cluster medical events into treatment milestones—cohesive and distinct components of care processes. The methodology is rigorously validated using synthetic datasets derived from the MIMIC-III database, designed to simulate the heterogeneity and overlapping procedural contexts characteristic of real-world EHR scenarios. Quantitative evaluation highlights the framework’s robustness in disentangling concurrent care pathways, with attention metrics and unsupervised clustering approaches demonstrating the ability to preserve intra-context relationships while distinguishing inter-context dependencies. By addressing challenges inherent in data heterogeneity, this approach provides a foundation for uncovering complex treatment patterns, advancing clinical decision-making, and optimizing resource allocation in diverse healthcare environments.

Kim, Minsu [ORNL] (ORCID:0000000224185535)↗
DOE OSTI2021

Wetter Summers Mitigated Temperature Stress on Rocky Mountain Forests During the Last Interglacial Warm Period

Recent droughts have highlighted concerns of how rising summer temperatures will increase tree mortality rates across the western United States. We analyzed subfossil wood samples from Colorado dating to the last interglacial to assess the response of two common conifers to a previous warm period. The trees experienced comparable growth rates and water use efficiency during the interglacial relative to modern despite evidence from model simulations of a ~30% increase in evaporative demand during the peak of the growing season. High-resolution isotopic analysis of the wood samples show an enrichment in the late season cellulosic δ 18 O relative to modern samples, which we find was associated with increased reliance on summer rain. The data are consistent with model simulations showing the interglacial was associated with wetter summers across the western US. Here, we propose enhanced summer rain during this period compensated for drought stress imposed by higher evaporative demand.

58 GEOSCIENCES↗
DOE OSTI2021

Evidence for sub-Chandrasekhar Type Ia supernovae from the last major merger

ABSTRACT We investigate the contribution of sub-Chandrasekhar mass Type Ia supernovae to the chemical enrichment of the Gaia Sausage galaxy, the progenitor of a significant merger event in the early life of the Milky Way. Using a combination of data from Nissen & Schuster, the GALactic Archaeology with HERMES (GALAH) Data Release 3 [with 1D non-local thermal equilibrium (NLTE) abundance corrections], and the Apache Point Observatory Galactic Evolution Experiment (APOGEE) Data Release 16, we fit analytic chemical evolution models to a nine-dimensional chemical abundance space (Fe, Mg, Si, Ca, Cr, Mn, Ni, Cu, and Zn) in particular focusing on the iron-peak elements, Mn and Ni. We find that low [Mn/Fe] $\sim -0.15\, \mathrm{dex}$ and low [Ni/Fe] $\sim -0.3\, \mathrm{dex}$ Type Ia yields are required to explain the observed trends beyond the [α/Fe] knee of the Gaia Sausage (approximately at [Fe/H] $=-1.4\, \mathrm{dex}$). Comparison to theoretical yield calculations indicates a significant contribution from sub-Chandrasekhar mass Type Ia supernovae in this system (from ${\sim} 60\, \mathrm{per\, cent}$ to $100\, \mathrm{per\, cent}$ depending on the theoretical model with an additional ${\pm} 10\, \mathrm{per\, cent}$ systematic from NLTE corrections). We compare to results from other Local Group environments including dwarf spheroidal galaxies, the Magellanic Clouds, and the Milky Way’s bulge, finding the Type Ia [Mn/Fe] yield must be metallicity dependent. Our results suggest that sub-Chandrasekhar mass channels are a significant, perhaps even dominant, contribution to Type Ia supernovae in metal-poor systems, whilst more metal-rich systems could be explained by metallicity-dependent sub-Chandrasekhar mass yields, possibly with additional progenitor mass variation related to star formation history, or an increased contribution from Chandrasekhar mass channels at higher metallicity.

Sanders, Jason L.↗
DOE OSTI2022

The landscape of Chlamydomonas histone H3 lysine 4 methylation reveals both constant features and dynamic changes during the diurnal cycle

Chromatin modifications are epigenetic regulatory features with major roles in various cellular events, yet they remain understudied in algae. Here, we interrogated the genome-wide distribution pattern of mono- and trimethylated histone H3 lysine 4 (H3K4) using chromatin-immunoprecipitation followed by deep-sequencing (ChIP-seq) during key phases of the Chlamydomonas cell cycle: early G 1 phase, Zeitgeber Time 1 (ZT1), when cells initiate biomass accumulation, S/M phase (ZT13) when cells are replicating DNA and undergoing mitosis, and late G 0 phase (ZT23) when they are quiescent. Tri-methylated H3K4 was predominantly enriched at transcription start sites of the majority of protein coding genes (85%). The likelihood of a gene being marked by H3K4me3 correlated with it being transcribed at some point during the life cycle but not necessarily by continuous active transcription, as exemplified by early zygotic genes, which may remain transcriptionally dormant for thousands of generations between sexual cycles. The exceptions to this rule were around 120 loci, some of which encode non-poly-adenylated transcripts, such as small nuclear RNAs and replication-dependent histones that had H3K4me3 peaks only when they were being transcribed. Mono-methylated H3K4 was the default state for the vast majority of histones that were bound outside of transcription start sites and terminator regions of genes. A small fraction of the genome that was depleted of any H3 lysine 4 methylation was enriched for DNA cytosine methylation and the genes within these DNA methylation islands were poorly expressed. Besides marking protein coding genes, H3K4me3 ChIP-seq data served also as a annotation tool for validation of hundreds of long non-coding RNA genes.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Multi-omics of a model bacterial consortium deciphers details of chitin decomposition in soil

Soil microorganisms interact to carry out decomposition of complex organic carbon and nitrogen compounds, such as chitin, but the high diversity and complexity of the soil microbiome and habitat have posed a challenge to elucidating such interactions. Here, we sought to address this challenge by analysis of a model soil consortium (MSC-2) consisting of eight soil bacterial species. Our aim was to elucidate the specific roles of the member species during chitin metabolism. Samples were collected from MSC-2 incubated in chitin-enriched soil over 3 months. Multi-omics was used to understand how the community composition, transcripts, proteins, and chitin decomposition shifted over time. The data clearly and consistently revealed a temporal shift during chitin decomposition with defined contributions by individual species. A Streptomyces genus member (sp001905665) was a key player in early steps of chitin decomposition, with other MSC-2 members being central in carrying out later steps. These results illustrate how multi-omics applied to a defined consortium untangles the interactions between soil microorganisms.

chitin↗
DOE OSTI2023

Volume 9: Critical Facility with Add-On Ion Beam

Completion of the originally planned critical facility has been considered as part of the High Flux Isotope Reactor (HFIR) Sustaining and Enhancing Neutron Science Initiative at Oak Ridge National Laboratory (ORNL). A working group of ORNL staff members was formed to develop the idea and to recommend one or more configurations to best support future HFIR operations and scientific capacities. HFIR was designed with a critical pool in the reactor bay that was projected to be outfitted as a critical facility. The primary purpose of the planned critical facility was to measure the subcritical worth of fresh fuel elements to support startup requirements. However, the Y-12 National Security Complex already housed a critical facility that was used for this purpose. This report presents the working group’s efforts, including determination of the proposed critical facility’s high-impact benefits. A generic low-power critical facility would be employed for reactor physics measurements, code and data validation, reactor operator and staff training, and education. This facility would be instrumental in supporting current HFIR operations, conversion of HFIR to low-enriched uranium, existing light water reactor operations, and advanced reactor development and deployment.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗