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At least 379 records · Page 21

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DOE OSTI2022

Multiplex knockout of trichome-regulating MYB duplicates in hybrid poplar using a single gRNA

As the focus for CRISPR/Cas-edited plants moves from proof-of-concept to real-world applications, precise gene manipulation will increasingly require concurrent multiplex editing for polygenic traits. A common approach for editing across multiple sites is to design one guide RNA (gRNA) per target; however, this complicates construct assembly and increases the possibility of off-target mutations. In this study, we utilized one gRNA to target MYB186, a known positive trichome regulator, as well as its paralogs MYB138 and MYB38 at a consensus site for mutagenesis in hybrid poplar (Populus tremula × P. alba INRA 717-1B4). Unexpected duplications of MYB186 and MYB138 resulted in eight alleles for the three targeted genes in the hybrid poplar. Deep sequencing and polymerase chain reaction analyses confirmed editing across all eight targets in nearly all of the resultant glabrous mutants, ranging from small indels to large genomic dropouts, with no off-target activity detected at four potential sites. This highlights the effectiveness of a single gRNA targeting conserved exonic regions for multiplex editing. Additionally, cuticular wax and whole-leaf analyses showed a complete absence of triterpenes in the trichomeless mutants, hinting at a previously undescribed role for the nonglandular trichomes of poplar.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2020

Co-occurrence of antibiotic, biocide, and heavy metal resistance genes in bacteria from metal and radionuclide contaminated soils at the Savannah River Site

Contaminants such as heavy metals may contribute to the dissemination of antimicrobial resistance (AMR)by enriching resistance gene determinants via co-selection mechanisms. In the present study, a survey was performed on soils collected from four areas at the Savannah River Site (SRS), South Carolina, USA, with varying contaminant profiles: relatively pristine(Upper Three Runs), heavy metals (Ash Basins), radionuclides (Pond B) and heavy metal and radionuclides (Tim’s Branch). Using 16S rRNA gene amplicon sequencing, we explored the structure and diversity of soil bacterial communities. Sites with legacies of metal and/or radionuclide contamination displayed significantly lower bacterial diversity compared to the reference site. Metagenomic analysis indicated that multidrug and vancomycin antibiotic resistance genes (ARGs) and metal resistance genes (MRGs) including those associated with copper, arsenic, iron, nickel and zinc were prominent in all soils including the reference site. However, significant differences were found in the relative abundance and diversity of certain ARGs and MRGs in soils with metal/radionuclide contaminated soils compared to the reference site. Co-occurrence patterns revealed significant ARG/MRG subtypes in predominant soil taxa including Acidobacteriaceae, Bradyrhizobium, Mycobacterium, Streptomyces, Verrumicrobium, Actinomadura and Solirubacterales. Overall, the study emphasizes the potential risk of human activities on the dissemination of AMR in the environment.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2023

Identification of ancestral gnathostome Gli3 enhancers with activity in mammals

Abnormal expression of the transcriptional regulator and hedgehog (Hh) signaling pathway effector Gli3 is known to trigger congenital disease, most frequently affecting the central nervous system (CNS) and the limbs. Accurate delineation of the genomic cis-regulatory landscape controlling Gli3 transcription during embryonic development is critical for the interpretation of noncoding variants associated with congenital defects. Here, we employed a comparative genomic analysis on fish species with a slow rate of molecular evolution to identify seven previously unknown conserved noncoding elements (CNEs) in Gli3 intronic intervals (CNE15–21). Transgenic assays in zebrafish revealed that most of these elements drive activities in Gli3 expressing tissues, predominantly the fins, CNS, and the heart. Intersection of these CNEs with human disease associated SNPs identified CNE15 as a putative mammalian craniofacial enhancer, with conserved activity in vertebrates and potentially affected by mutation associated with human craniofacial morphology. Finally, comparative functional dissection of an appendage-specific CNE conserved in slowly evolving fish (elephant shark), but not in teleost (CNE14/hs1586) indicates co-option of limb specificity from other tissues prior to the divergence of amniotes and lobe-finned fish. In conclusion, these results uncover a novel subset of intronic Gli3 enhancers that arose in the common ancestor of gnathostomes and whose sequence components were likely gradually modified in other species during the process of evolutionary diversification.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Identification of a secretory heme‐binding protein from Nocardia seriolae involved in cell apoptosis

Abstract According to the whole‐genome bioinformatics analysis, a heme‐binding protein from Nocardia seriolae (HBP) was found. HBP was predicted to be a bacterial secretory protein, located at mitochondrial membrane in eukaryotic cells and have a similar protein structure with the heme‐binding protein of Mycobacterium tuberculosis , Rv0203. In this study, HBP was found to be a secretory protein and co‐localized with mitochondria in FHM cells. Quantitative analysis of mitochondrial membrane potential value, caspase‐3 activity, and transcription level of apoptosis‐related genes suggested that overexpression of HBP protein can induce cell apoptosis. In conclusion, HBP was a secretory protein which may target to mitochondria and involve in cell apoptosis in host cells. This research will promote the function study of HBP and deepen the comprehension of the virulence factors and pathogenic mechanisms of N. seriolae .

Wen, Yiming↗

DOE OSTI2024

Genomic insights into redox-driven microbial processes for carbon decomposition in thawing Arctic soils and permafrost

Climate change is rapidly transforming Arctic landscapes where increasing soil temperatures speed up permafrost thaw. This exposes large carbon stocks to microbial decomposition, possibly worsening climate change by releasing more greenhouse gases. Understanding how microbes break down soil carbon, especially under the anaerobic conditions of thawing permafrost, is important to determine future changes. Here, we studied the microbial community dynamics and soil carbon decomposition potential in permafrost and active layer soils under anaerobic laboratory conditions that simulated an Arctic summer thaw. The microbial and viral compositions in the samples were analyzed based on metagenomes, metagenome-assembled genomes, and metagenomic viral contigs (mVCs). Following the thawing of permafrost, there was a notable shift in microbial community structure, with fermentative Firmicutes and Bacteroidota taking over from Actinobacteria and Proteobacteria over the 60-day incubation period. The increase in iron and sulfate-reducing microbes had a significant role in limiting methane production from thawed permafrost, underscoring the competition within microbial communities. We explored the growth strategies of microbial communities and found that slow growth was the major strategy in both the active layer and permafrost. Our findings challenge the assumption that fast-growing microbes mainly respond to environmental changes like permafrost thaw. Instead, they indicate a common strategy of slow growth among microbial communities, likely due to the thermodynamic constraints of soil substrates and electron acceptors, and the need for microbes to adjust to post-thaw conditions. The mVCs harbored a wide range of auxiliary metabolic genes that may support cell protection from ice formation in virus-infected cells.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2022

Hod Carrier

SAND2023-06720O Hod Carrier is a simple proof-of-concept library for moving data from host to NVIDIA BlueField device memory using remote direct memory access. The Hod Carrier software also facilitates research activities related to the potential uses of NVIDIA BlueField data processing unit devices. Using well-established technologies (e.g., RDMA over Infiniband), it will move data from the host to the data processing unit’s memory. This software is a middleware utility for moving data without regard to its semantic meaning. Its operation is fundamentally unaffected by storage allocation. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

SciDAC↗

DOE OSTI2024

On the length scale and rate-dependent mechanical behavior of monolithic (oxy)sulfidic glassy solid-state electrolytes

In the controlled atmosphere of a dedicated glove box, nanoindentation performed with a diamond Berkovich indenter tip has been used to examine the mechanical behavior of three (oxy)sulfide solid-state electrolytes (SSEs), 70Li 2 S·(30–x)P 2 S 5 ·xP 2 O 5 (x = 0, 2, and 5). At a drive frequency of 120 Hz, the elastic modulus is found to be predominantly depth independent over the range of 100 nm to 1 μm and generally insensitive to the varying mol fraction of oxygen (0, 2, and 5%) as well as the imposed strain rates of 0.025, 0.05, and 0.1 1/s. All three SSEs exhibit significant room-temperature creep. Strain burst activity observed during loading (potentially representative of pore collapse or cracking) is attenuated with the addition of oxygen. The hardness is found to be insensitive to the imposed strain rates but varying with depth and oxygen content. Furthermore, the highest oxygen concentration yields the lowest hardness and strongest depth dependence.

36 MATERIALS SCIENCE↗

DOE OSTI2025

Technical Geothermal Roadmap for Indonesia

The technical geothermal roadmapping exercise described by this report is part of the NZW Collaborative Work Program with the Government of Indonesia. Indonesia currently has the second largest installed geothermal power generation capacity in the world and has abundant undeveloped resources that allow for continued expansion of its geothermal resource development, which can serve to contribute to the country’s goal of achieving net zero emissions for power generation by 2060. The DOE GeoVision study (2019) highlighted the importance of technical improvements as the key for accelerating the development of geothermal resources in the United States by reducing the costs and risks to make geothermal more competitive, and this also applies to Indonesia. The main objective of the roadmap is to identify and discuss key technical challenges and discuss how implementation of geothermal technology advances could reduce the risks, costs, and time associated with geothermal exploration and development activities and expand the potential resource base to include unconventional resource types, thus accelerating geothermal deployment in Indonesia.

15 GEOTHERMAL ENERGY↗

DOE OSTI2024

Hydrogen Transportation and Distributed Energy Systems Risk and Feasibility Assessment for Airport Facilities - CRADA 555 (Abstract)

This CRADA presents the strategy that Pacific Northwest National Laboratory (PNNL) and Sandia National Laboratories (SNL) will take to support PDX in performing a risk assessment for several hydrogen deployment scenarios. It is intended that the deployment of hydrogen at PDX could serve several roles, including decarbonizing its bus fleet and building out a distributed energy system which could also be used to facilitate emergency operations. PDX’s initial plans concern replacing their current fleet of 28 busses with FCEBs. To do so, PDX will need to deploy the hydrogen systems needed to support the buses. This includes hydrogen storage, production, delivery, filling, compression, and maintenance. PDX also has long range plans to build a distributed energy system to support normal and resilient operations. This study will investigate the risks of each plan individually, and a combined plan which serves both. Additionally, PDX is in an area with the potential for high seismic activity, as such this work will also include a seismic risk assessment. A detailed risk assessment using PDX as a test case is necessary to ensure the deployment of large-scale hydrogen is successful and to understand the benefits or drawbacks in contrast to electric only technologies. Many technologies have been proposed that claim to utilize hydrogen for both transportation and distributed energy systems; however, these technologies need to be analyzed as they apply to an actual site. The physical infrastructure and hydrogen use cases for PDX will be analyzed, a risk assessment will be performed on the hydrogen infrastructure and distributed energy system. These assessments will be useful for understanding how each of these technologies would perform as applied to a large public facility and public safety. The results of this CRADA, and an impact of the DOE funding, will evaluate hydrogen as a key fuel for PDX and will accelerate by several years availability of hydrogen, fuel cells, and other low-carbon technologies.

08 HYDROGEN↗

DOE OSTI2024

Early Inference of Nuclear Technology-Directed Research Activities of Authors from Scientific Publications

Nuclear research articles can provide information about early nuclear proliferation indicators such as influential research entities and technology capability levels of a country, but detection of nuclear activities typically occurs after they have started. We investigate the extent to which nuclear research articles can be used to infer whether a research entity will acquire or develop a nuclear technology before it happens. Early detection of nuclear proliferation or technology development indicators from data is challenging due to partial observability, sparse and unlabeled information, and confounding signals from multiple concurrent activities. This paper presents the early detection problem as a sequential decision-making, goal inference problem, where the objective is to characterize and predict an individual’s, organization’s, or a country’s intent (unobserved goal-directed behavior) towards developing a nuclear capability from partially observed sequences of their research publications, using inverse reinforcement learning and Bayesian goal inference methods. A computational framework is presented, and its application demonstrated using 29,196 Scopus records for a case study related to a civil nuclear capability. The case study results serve as a proof-of-concept demonstration for inference of technology-directed research activity of authors who publish in the nuclear domain. The inference method, combined with advanced computing, may be used to assess and monitor activities pertaining to early developmental stages of a nuclear technology or capability, which in turn can help to identify and prioritize activities with nuclear proliferation potential for further investigation.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗

DOE OSTI2021

Templating Functional Materials Using Self-Assembled Block Copolymer Thin-Film for Nanodevices

The nanomorphologies and nanoarchitectures that can be synthesized using block copolymer (BCP) thin-film self-assembly have inspired a variety of new applications, which offer various advantages, such as, small device footprint, low operational power and enhanced device performance. Imperative for these applications, however, is the ability to transform these small polymeric patterns into useful inorganic structures. BCP-templated inorganic nanostructures have shown the potential for use as active materials in various electronic device applications, including, field-effect transistors, photodetectors, gas sensors and many more. This article reviews various strategies that have been implemented in the past decade to fabricate devices at nanoscale using block copolymer thin films.

Subramanian, Ashwanth↗

DOE OSTI2020

Synthesis and oxidation of methane

The present disclosure describes genes and proteins of the coenzyme F430 synthetic pathway. The genes and proteins in the pathway find uses as isolated nucleic acids, transformation vectors, a transformation media, genetically modified cells, methods of modulating methanogenesis, methods of modulating methane oxidation, methods of making a tetrapyrrole compound, methods of oxidizing methane, methods of biogenic methane synthesis is provided, methods of assaying an organism for potential methanogenic or methanotrophic activity, and isolated proteins.

10 SYNTHETIC FUELS↗

DOE OSTI2023

Preliminary report on applications of machine learning techniques to the Nevada play fairway analysis

We are applying machine learning (ML) techniques, including training set augmentation and artificial neural networks, to mitigate key challenges in the Nevada play fairway project. The study area includes ~85 active geothermal systems as potential training sites and >12 geologic, geophysical, and geochemical features. The main goal is to develop an algorithmic approach to identify new geothermal systems in the Great Basin region. Major objectives include: 1) integrate ML techniques into the geothermal community; 2) develop open community datasets, whereby all play fairway and ML datasets and algorithms are publicly released and available for modification by various user groups; 3) identify data acquisition targets with high value for future work; 4) identify new signatures to detect blind geothermal systems; and 5) foster new capabilities for characterizing subsurface temperature and permeability. Initially, ML techniques are being applied to the same play fairway datasets and workflow. ML will then be applied to both enhanced and additional datasets, with modification of the PFA workflow to incorporate the new datasets. Finally, ML will be applied to define new workflows using the enhanced and additional datasets. An algorithmic approach that empirically learns to estimate weights of influence for diverse parameters can potentially scale and perform better than the play fairway analysis. Initial work on this project has involved 1) evaluating potential positive and negative training sites, 2) transformation of datasets into formats suitable for ML, and 3) initial development and testing of ML techniques.

58 GEOSCIENCES↗

DOE OSTI2024

Preliminary Analysis of Advanced Reactors Storage, Transportation, and Disposal

Based on the higher interest in Advanced Reactor (AR) deployment (e.g., ARDP[1]) for potential new fuel cycles, the Spent Fuel & Waste Science and Technology (SFWST) Program has begun to evaluate the possible implications of long-term management and final disposition of potential Advance Reactor spent nuclear fuels (SNF) that would be generated in potential advanced reactors. Safely managing and dispositioning the potential future AR SNF, and any other associated radioactive wastes, is the primary focus of this initial preliminary assessment of those. This paper summarizes the efforts by the Spent Fuel & Waste Science and Technology (SFWST) in evaluating characteristics and packaging options for advanced reactor spent nuclear fuel forms. The fuel forms were categorized into three types: (1) tristructural isotropic (TRISO), (2) metallic, and (3) fuel salt. This work emphasized TRISO and metallic SNF and waste streams because of the near-term anticipated operation of the Xe-100 and the Natrium reactors as advanced-reactor demonstrations. Preliminary information for the spent-fuel salts discharged from molten-salt reactors (MSRs) is also examined to provide a baseline for future efforts. All calculations and assumptions used publicly available information. The following characteristics are calculated or estimated for use in the preliminary assessments: SNF volume and mass, radiation/activity levels through time, thermal conditions through time, potential radionuclide source terms, chemical interactions and evolutions, disposal inventories, and waste-form lifetime. Using those characteristics, calculations to determine the applicability of existing canister designs were performed. These evaluations included geometric (e.g., dimension, volume) and mass/weight considerations, known operational approaches and loading procedures, physical and chemical considerations/conditions for storage environments, as-loaded radiation, thermal, and criticality analyses to identify constraints for storage, transportation, and disposal. The paper also includes a literature review and analysis on the storage, transportation, and disposal evaluations and experiences from reactors with similar fuel forms. Advanced-reactor vendors cite past experiences with Fort St. Vrain for TRISO and the Experimental Breeder Reactor II (EBR-II) for metallics that have major influences on fuel design. Finally, the paper includes preliminary concepts of operation for advanced-reactor SNF. This encompasses storage, transportation, potential treatment, and disposal activities from both a per-canister and systems-integration perspective.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

DOE OSTI2024

Synthesis and oxidation of methane

Mansoorabadi, Steven↗

DOE OSTI2024

Operando Investigation on the Role of Densification and Chemo-Mechanics on Solid-State Cathodes

All solid-state batteries are desirable for a range of energy storage applications which require high energy density. Achieving a high energy density in a solid-state battery requires the operation of an energy dense anode with a composite solid-state cathode. Pores and/or voids within a solid state cathode are ion-blocking and thus control over the concentration and distribution of pores in the initial electrode and cycled electrode is desirable. This study provides an understanding of the interplay between electrode microstructure and mechanics on active material utilization in solid state cathodes composed of NCM 811 and Li 6 PS 5 Cl. Decreasing the solid electrolyte particle size leads to greater active material-electrolyte contact and less total deformation when exposed to an external load. Composite cathodes with greater compliance can potentially decrease strain between the active material and solid electrolyte, decrease delamination events and result in higher overall active material utilization and high capacity retention.

25 ENERGY STORAGE↗

DOE OSTI2022

Designing 1D multiheme peptide amphiphile assemblies reminiscent of natural systems

We discuss protein assemblies that bind and organize ordered arrays of cofactors yield function structures. Multiheme assemblies found in nature yield electronically conductivity 1D nanoscale fibers and are employed in anaerobic respiration. To understand the fundamental characteristics of these organized arrays, the design of peptide amphiphiles that assemble into 1D nanostructures and yield metalloporphyrin binding sites is presented. One challenge with this class of peptide amphiphiles is identifying the correct sequence composition for high affinity binding with high heme density. Here, the peptide c16-AH(Kx)n-CO 2 H is explored to identify the impact of sequence length (n) and amino acid identity (x = L, I, or F) on binding affinity and midpoint potential. When n = 2, the peptide assembly yields the greatest affinity. The resulting nanoscale assemblies yield ordered arrays of the redox active molecule heme and have potential utility in the development of supramolecular bioelectronic materials useful in sensing as well as the development of enzymatic materials.

77 NANOSCIENCE AND NANOTECHNOLOGY↗

DOE OSTI2025

Decoding the Oxygen Activity with Iron through Ligand-to-Metal Charge Transfer in Li-Rich Layered Cathodes

The quest for high-energy-density and cost-effective cathode materials has revitalized lithium-rich iron-based oxides, where Fe 3+ ions with their stable half-filled d 5 electronic configuration demonstrate unique potentials in regulating oxygen redox activity through ligand-to-metal charge transfer. Using operando 57 Fe Mössbauer spectroscopy, synchrotron X-ray techniques, and density functional theory calculations, we unravel the enhanced Fe–O redox activity through the LMCT process and the concomitant evolution of local structure distortion in the Li-rich layered system Li 1.2 MO 2 (M = Ni, Mn, Fe). The metastable Fe 4+ intermediates facilitate early activation of oxygen redox through LMCT along with increased delithiation at a lowered potential (below 4.5 V). Here, this process inherently suppresses Jahn–Teller distortion of Fe 4+ and exhibits Fe–O redox dominance over conventional Fe 3+ /Fe 4+ redox in Li-rich oxides. The Fe–O coupling redox exhibits improved initial Coulombic efficiency and 95% capacity retention over 200 cycles at 4.4 V. However, the LMCT process is accompanied by aggravated cation migration and voltage fade at low cutoff potentials, which requires further mitigation for the utilization of Fe–O redox. Overall, these findings demonstrate the regulating mechanism of iron for oxygen redox through LMCT and provide fundamental insights into the design principles for high-performance, cost-effective iron-based cathode materials.

36 MATERIALS SCIENCE↗