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At least 1,351 records · Page 75

Structure of SARS-CoV-2 ORF8, a rapidly evolving immune evasion protein

The molecular basis for the severity and rapid spread of the COVID-19 disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is largely unknown. ORF8 is a rapidly evolving accessory protein that has been proposed to interfere with immune responses. The crystal structure of SARS-CoV-2 ORF8 was determined at 2.04-Å resolution by X-ray crystallography. The structure reveals a ~60-residue core similar to SARS-CoV-2 ORF7a, with the addition of two dimerization interfaces unique to SARS-CoV-2 ORF8. A covalent disulfide-linked dimer is formed through an N-terminal sequence specific to SARS-CoV-2, while a separate noncovalent interface is formed by another SARS-CoV-2-specific sequence, 73 YIDI 76 . Together, the presence of these interfaces shows how SARS-CoV-2 ORF8 can form unique large-scale assemblies not possible for SARS-CoV, potentially mediating unique immune suppression and evasion activities.

59 BASIC BIOLOGICAL SCIENCES↗

Structure and Function of REP34 Implicates Carboxypeptidase Activity in Francisella tularensis Host Cell Invasion

Francisella tularensis is the etiological agent of tularemia, or rabbit fever. Although F. tularensis is a recognized biothreat agent with broad and expanding geographical range, its mechanism of infection and environmental persistence remain poorly understood. Previously, we identified seven F. tularensis proteins that induce a rapid encystment phenotype (REP) in the free-living amoeba, Acanthamoeba castellanii. Encystment is essential to the pathogen's long term intracellular survival in the amoeba. Here, we characterize the cellular and molecular function of REP34, a REP protein with a mass of 34 kDa. A REP34 knock-out strain of F. tularensis has a reduced ability to both induce encystment in A. castellanii and invade human macrophages. We determined the crystal structure of REP34 to 2.05-Å resolution and demonstrate robust carboxypeptidase B-like activity for the enzyme. REP34 is a zinc-containing monomeric protein with close structural homology to the metallocarboxypeptidase family of peptidases. REP34 possesses a novel topology and substrate binding pocket that deviates from the canonical funnelin structure of carboxypeptidases, putatively resulting in a catalytic role for a conserved tyrosine and distinct S1' recognition site. Taken together, these results identify REP34 as an active carboxypeptidase, implicate the enzyme as a potential key F. tularensis effector protein, and may help elucidate a mechanistic understanding of F. tularensis infection of phagocytic cells.

59 BASIC BIOLOGICAL SCIENCES↗

CRAGE-mediated insertion of fluorescent chromosomal markers for accurate and scalable measurement of co-culture dynamics in Escherichia coli

Monitoring population dynamics in co-culture is necessary in engineering microbial consortia involved in distributed metabolic processes or biosensing applications. However, it remains difficult to measure strain-specific growth dynamics in high-throughput formats. This is especially vexing in plate-based functional screens leveraging whole-cell biosensors to detect specific metabolic signals. Here, we develop an experimental high-throughput co-culture system to measure and model the relationship between fluorescence and cell abundance, combining chassis-independent recombinase-assisted genome engineering (CRAGE) and whole-cell biosensing with a PemrR-green fluorescent protein (GFP) monoaromatic reporter used in plate-based functional screening. CRAGE was used to construct Escherichia coli EPI300 strains constitutively expressing red fluorescent protein (RFP) and the relationship between RFP expression and optical density (OD600) was determined throughout the EPI300 growth cycle. A linear equation describing the increase of normalized RFP fluorescence during deceleration phase was derived and used to predict biosensor strain dynamics in co-culture. Measured and predicted values were compared using flow cytometric detection methods. Induction of the biosensor lead to increased GFP fluorescence normalized to biosensor cell abundance, as expected, but a significant decrease in relative abundance of the biosensor strain in co-culture and a decrease in bulk GFP fluorescence. Taken together, these results highlight sensitivity of population dynamics to variations in metabolic activity in co-culture and the potential effect of these dynamics on the performance of functional screens in plate-based formats. The engineered strains and model used to evaluate these dynamics provide a framework for optimizing growth of synthetic co-cultures used in screening, testing and pathway engineering applications.

59 BASIC BIOLOGICAL SCIENCES↗

First identification of resonant states in the {sup 45}V(p, {gamma}){sup 46}Cr reaction and their influence on the production of {sup 44}Ti in Core Collapse Supernovae

The observation of active 44Ti in supernova remnants offers the potential to solve one of the most debated questions in modern astrophysics, the exact underlying explosion mechanism of core collapse supernovae (CCSNe). In particular, a comparison between the predicted synthesized yield of 44Ti and the ejected flux is expected to allow for a determination of the mass cut of the star. Unfortunately, such comparisons are currently severely hindered by large uncertainties in the nuclear reactions governing the production and destruction of 44Ti. On this note, the astrophysical 45Vðp; γÞ46Cr reaction is expected to play a decisive role. We present the first experimental information on resonant states in the 45Vðp; γÞ46Cr reaction. Excitation energies have been measured with high precision for ten previously unknown, low-spin, proton-unbound states in 46Cr, and spin-parity-assignment constraints have been made using observed γ-decay patterns and shell-model calculations. We find that an l ¼ 1 resonance at 714 keV dominates the 45Vðp; γÞ46Cr reaction for the entire temperature range of α-rich freezeout. Moreover, the nominal rate is found to be ∼25–50% of previous estimates for T > 1.2 GK, indicating an increase in 44Ti production in CCSNe of ∼20–35%.

Cousins, C↗

Inverse Method for Noninvasive Material Discrimination with Multienergy X-Ray Radiography

Active x-ray inspections have great potential for noninvasive detection of illicit materials. Dual-energy x-ray radiography, in particular, has been used to determine material composition by utilizing the energy-dependence of the x-ray attenuation coefficients. However, current implementations of this method are limited in their ability to determine the material composition of composite objects. Here, in this paper, we present an inverse algorithm that uses multienergy x-ray radiography data to noninvasively reconstruct the contents of a container. A critical feature of the current contribution is that material identification can be performed using conventional detectors and x-ray spectra with different endpoint energies produced by varying nothing more than the tube voltage. Adaptive regularization is used to increase the accuracy of material estimations from multienergy data sets. The utility of these methods is demonstrated with experimentally acquired radiographs obtained using a tunable x-ray source that produces spectra with endpoint energies of 100–450 keV. The object inspected is a scale model of a nuclear materials storage container composed of three-dimensional printed plastic and stainless-steel spheres inside a thin-walled steel container. Reconstructions of the steel sphere thicknesses are within a root-mean-square error of 0.37 cm.

47 OTHER INSTRUMENTATION↗

Trap Passivation for Reducing On-Resistance and Saturation Voltage in Wafer-Bonded InGaAs-Channel/GaN-Drain Vertical FETs

High frequency and high power are the driving forces behind semiconductor transistor technology. However, conventional devices have the tradeoff of either being high speed or high breakdown—but not both. Wafer-bonded current aperture vertical electron transistors (BAVETs) help eliminate the tradeoff by combining a high-speed III-As channel to a high-breakdown III-N drift region. The device presented herein comprises of an InAlAs gate-barrier/InGaAs channel, wafer-bonded to an InGaN/GaN drift region, with the InGaAs/InGaN interface referred to as the wafer-bonded interface (WBI). The electronic behavior of WBIs is yet less known but necessary in realizing the potential of a BAVET. Herein, strong trap activity at the WBI is shown to be the cause of abnormally high saturation voltage ( V DS_SAT ) in BAVETs. The traps cause unintentional space charge (SC) region in the drain region of the device. This causes a drain resistance, a higher ON-resistance ( R ON ), and a higher V DS_SAT . Here, the challenge is overcome by hydrogen passivation of traps at WBI by using a p-doping for the InAlAs layer, which reduces the trap-charge concentration at the WBI. Consequently, the width of the SC region is reduced and a reduction in V DS_SAT is demonstrated, wherein it reduces from >12 to 5 V.

36 MATERIALS SCIENCE↗

Multiple Mechanisms for Copper Uptake by Methylosinus trichosporium OB3b in the Presence of Heterologous Methanobactin

Methanotrophs play a critical role in the global carbon cycle, as well as in future strategies for mitigating climate change through their consumption of methane, a trace atmospheric gas much more potent than carbon dioxide in global warming potential. Copper uptake is critical for methanotrophic activity, and here, we show different approaches for copper uptake.

59 BASIC BIOLOGICAL SCIENCES↗

LTE-P-10 RDE

A standardized procedure for rotating disk electrode (RDE) experiments for the ex-situ characterization of oxygen evolution reaction (OER) catalysts for PEM water electrolyzers. This protocol should allow for the analysis of onset potential, overpotential at a fixed current, catalytic activity, and electrochemical surface area of these catalysts.

08 HYDROGEN↗

Hydration Mechanisms in Nanoparticle Interaction and Surface Energetics

Work on the project advanced molecular level understanding, prediction and control of nanoscale hydration in salt solutions under electric stimuli or ionic patterning. Permeation of nanoporous electrodes at preset voltage underlies the function of ultracapacitors. Transitory regulation of wetting in nanoporous media by electric field spans an array of applications in materials, energy storage, and separation sciences. The physically related modulation of nanoparticle solubility by surface charges can significantly extend the range of the nanomaterial applications, improve processing techniques, and potentially alleviate environmental concerns. Pore/solution equilibria, and activated kinetics of liquid gating by nanoconfined electrolytes are challenging problems at the forefront of experimental and theoretical research. Addressing these problems from a molecular perspective required the development of state-of-the-art simulation algorithms in statistical mechanics to capture complex processes in open systems under electric control. Parallel studies of wetting and dispersibility of polar and ionizing particles aim to uncover predictive relations between electrowetting, chemical functionalization, and geometry of nanomaterial particles. By nonequilibrium dynamic modeling, we elucidated electrolyte flow in nanochanels and associated electrokinetic energy conversion. Research on the program provided training opportunities for the next generation of scientists in computational chemistry. Insights, and methods from the project implicate broad segment of researchers in energy and nanosciences, materials and surface chemistry.

74 ATOMIC AND MOLECULAR PHYSICS↗

Reconstruction of Pre- and Post-Test Surfaces at the U-20az BARNWELL Site, Nevada National Security Site

Technical report on results of photogrammetric reconstruction task at NNSS. Modern photogrammetric methods were applied to historic aerial photographs taken six days before and four days after the BARNWELL underground nuclear explosion (UNE) to recreate the pre-UNE topography and the fresh post-UNE surface. The surfaces were compared to each other to characterize surface effects of the BARNWELL UNE. Topographic changes between the pre-UNE and post-UNE surfaces were limited to minor rock fall and intentional changes related to construction activities. Methods developed in this study could potentially be used across a much wider area to discover and catalogue as yet undescribed subtle underground nuclear explosion surface effects.

58 GEOSCIENCES↗

A New Approach to Fundamental Mechanism Discovery in Polymer Upcycling

We present a new experimental methodology for detailed experimental investigations of depolymerization reactions over solid catalysts. This project aims to address a critical need in fundamental research on chemical upcycling of polymers – the lack of rapid, sensitive, isomerselective probing techniques for the detection of reaction intermediates and products. Our method combines a heterogeneous catalysis reactor for the study of multiphase (gas/polymer melt/solid) systems, coupled to a vacuum UV photoionization time-of-flight mass spectrometer. This apparatus draws on our expertise in probing complex gas-phase chemistry and enables highthroughput, detailed chemical speciation measurements of the gas phase above the catalyst, providing valuable information on the heterogeneous catalytic reactions. Using this approach, we investigated the depolymerization of high-density polyethylene (HDPE) over Ir-doped zeolite catalysts. We showed that the product distribution was dominated by low-molecular weight alkenes with terminal C=C double bonds and revealed the presence of many methyl-substituted alkenes and alkanes, suggesting extensive methyl radical chemistry. In addition, we investigated the fundamental reactivity of model oligomer molecules n-butane and isobutane over ZSM-5 zeolites. We demonstrated the first direct detection of methyl radical intermediates, confirming the key role of methyl in zeolite-catalyzed activation of alkanes. Our results show the potential of this experimental method to achieve deep insight into the complex depolymerization reactions and pave the way for detailed mechanistic studies, leading to increased fundamental understanding of key processes in chemical upcycling of polymers.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

2021 Idaho National Laboratory Site Environmental Report

The INL Site’s operations, as well as the ongoing cleanup, necessarily involve a commitment to environmental stewardship and full compliance with environmental protection laws. As part of this commitment, the INL Site Environmental Report is prepared annually to inform the public, regulators, stakeholders, and other interested parties of the INL Site’s environmental performance during the year. This report is published for the DOE-ID in compliance with DOE O 231.1B, “Environment, Safety and Health Reporting.” Its purpose is to: • Present the INL Site, mission, and programs • Report compliance status with applicable federal, state, and local regulations • Describe the INL Site environmental programs and activities • Summarize results of environmental monitoring • Discuss potential radiation doses to the public residing in the vicinity of the INL Site • Report on ecological monitoring and research conducted by contractors and affiliated agencies and by independent researchers through the Idaho National Environmental Research Park • Describe quality assurance methods used to ensure confidence in monitoring data • Provide supplemental technical data and reports that support the INL Site Environmental Report (https://idahoeser.inl.gov/publications.html).

99 GENERAL AND MISCELLANEOUS↗

Assessment of Nuclear Energy to Support Negative Emission Technologies

The feasibility and performance of nuclear energy coupled with Negative Emission Technology (NET) processes were investigated in this report. Three overarching questions from nuclear NET systems guided this research: which NET would be able to use heat and/or electricity from nuclear power plants (NPPs); what is the performance and cost of a nuclear NET system; and what would be the market outlook for this system? Among the various NETs that are actively being developed, several were found to potentially benefit from coupling with an NPP via (1) large amounts of decarbonized and constant-output electricity; (2) free waste heat or cheap low-temperature heat; or (3) high-temperature heat. NPPs were found to be compatible with Direct Air Capture (DAC) systems, and a detailed techno-economic analysis of coupled NPP&DAC systems was performed. Preliminary analysis also indicated that biomass and water-based NETs are potentially compatible with NPPs, but further work is needed to quantify the performance of these nuclear NET systems. Design and performance analyses were completed for both liquid solvent DAC (L-DAC) and solid sorbent DAC (S-DAC) technologies. A 1.0-GWth NPP coupled with L-DAC and S-DAC was found to be able to capture 12–15 Mt CO 2 /yr and 1.0–1.5 Mt CO 2 /yr, respectively. While the L-DAC process enables much greater CO 2 capture than the S-DAC process when both are sized with a 1 GWth NPP, the NPP&L-DAC system considered also requires >2 GWth natural gas oxy-combustion to reach adequate temperature in the calciner. CO 2 generated from natural gas combustion is also captured as part of the calcination process, in addition to the CO 2 captured from air, resulting in overall CO 2 sequestration of close to 30% more than what is captured from air. The cost of carbon capture calculated with the levelized cost of DAC (LCOD) had a range of $\$170–260$/tCO 2 for NPP&L-DAC systems and a range of $\$650–680$/tCO 2 for NPP&S-DAC systems. For both DAC systems, the NPP provides economic benefit when compared to previous National Energy Technology Laboratory (NETL) studies of non-nuclear DAC systems, leading to reduction of LCOD by 5–7% for L-DAC, and 8–13% for S-DAC. For the NPP&DAC systems, a preliminary market analysis reviewed potential CO 2 market prices and eligibility for incentives. The estimated potential revenues for CO 2 capture (coming from federal incentive, CO 2 commodity markets, or offset market) is in the range of $\$170–979$ tCO 2 , and the results show that because of lower LCOD, the NPP&L-DAC process would be more attractive to a market than the NPP&S-DAC process. The large investment needed for NPP&DAC processes would require long-term certainty of sufficient market size, CO 2 prices, and incentives. Enabling NPPs to ramp DAC operation up or down based on electricity market price is not expected to significantly increase revenues of the NPP&DAC system. This is because the revenues from CO 2 sequestration are required to be very high to justify the deployment and continuous operation of the very expensive DAC technologies. In this analysis, several new research questions were uncovered, and follow-up analyses are recommended for further investigation, including a detailed feasibility study of NPP coupled with other NET systems such as biomass pyrolysis and gasification with carbon capture and storage, and seawater carbon capture.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

Sludge Processing Options for early HLW Treatment at Hanford

The U.S. Department of Energy’s (DOE) Hanford Site has 177 underground storage tanks that contain wastes from past nuclear fuel reprocessing and waste-management operations. Over 20% of this waste is in the form of an insoluble sludge that will require solids concentration and washing prior to vitrification for long-term disposal. An assessment of potential flowsheet operations to support feed preparation activities prior to high level waste (HLW) vitrification has been conducted to better evaluate pretreatment processing options. Settling studies assessing the baseline approach of a settle-decant method were explored as well as a crossflow filtration system to be used alternatively for concentrating and washing HLW sludge. Significant variations in behavior of settling rates and sludge characteristics give reason to evaluate alternative pretreatment options for the HLW. Non-radioactive sludge containing iron oxide, boehmite, and gibbsite were evaluated via gravity settling and crossflow filtration to determine the behavior of these compounds in various tank waste matrices. Understanding the predictive capabilities of HLW solids settling as well as sludge concentration via crossflow filtration can help provide technical guidance during flowsheet planning.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Green Biodegradation: Analysis of Potential Polyurethane-degrading Enzymes and Their Secretion in Chlamydomonas reinhardtii

Plastic pollution is a critical global issue, with only 5% of plastics currently recycled. Polyester polyurethane (PU), a widely used plastic, can potentially be broken down using enzymatic biodegradation rather than mechanical processing that generates microplastics. This study focuses on PS5, a potential PU-degrading enzyme with esterase activity, capable of cleaving ester bonds found in PU structures. Researchers investigated the expression and secretion of PS5 in the green microalga Chlamydomonas reinhardtii, a sustainable production platform capable of generating PU precursors such as lipids and diacids while sequestering carbon. Experiments demonstrated that PS5 significantly outperformed commercial lipase in cleaving the FDA substrate, indicating high esterase activity. Algal transformants expressing PS5 also showed halo formation on Impranil®-agar plates, suggesting PU dispersion degradation. These findings highlight C. reinhardtii as a viable chassis for the production and secretion of plastic-degrading enzymes, offering a sustainable route to both upcycle and degrade PU products at the end of their lifecycle.

Diaz, Crisandra Jade↗

Advancements in High-Q development for novel medium-velocity 644 MHz 5-cell elliptical superconducting RF cavities for continuous-wave operation in heavy-ion linacs

The Facility for Rare Isotope Beams is a world-leading center for experimental nuclear physics research, and relies on a first-in-kind superconducting RF driver linac to supply 400 kW beams of a uniquely large range of particles, from protons through the heaviest uranium ions. The FRIB400 project proposes to double the end energy of the current superconducting FRIB linac for the heaviest uranium ions from 200 MeV per nucleon (MeV/u) to 400 MeV/u, which equates to approximately 1 GeV for protons. The increased rare isotope production from higher-energy drive beams would deliver new and exciting capabilities to FRIB users, which include extending the facility's reach along the neutron drip-line, greatly increasing the facility's rare isotope yield, and significantly improving the precision of parameter measurements for the nuclear matter equation of state, which is a particularly timely complement to the recent advent of multi-messenger astronomy, and the study of neutron star mergers. The unique set of design parameters defined by the 400 MeV/u (uranium) energy goal, the physical size, continuous-wave operation, and cryogenic capacity of the extant facilities at FRIB, requires development of a first-in-kind beta = v/c = 0.65, 644 MHz 5-cell elliptical superconducting RF (SRF) cavity, with field-leading efficiency, measured by the cavity's intrinsic quality factor, Q_0. The field of SRF has recently experienced a very active period of development, which demonstrated the potential to raise the Q_0 of 1.3 GHz cavities by factors of two to three or more. In addition to uncovering fascinating new properties of the fundamental physics of superconducting RF phenomena, these improvements suggest substantial improvements could be made over the minimum Q_0 of the proposed FRIB400 upgrade SRF cavities, if these new techniques can be adapted to the beta = 0.65, 644 MHz regime. This work presents the first validation of the the novel beta = 0.65, 644 MHz 5-cell elliptical superconducting RF cavity design, and the first results of both conventional and advanced RF surface preparation techniques. In particular, this work focuses on two recently-developed high-Q_0 recipes: N-doping, and furnace baking, setting the current world-record Q_0 for this type of resonant cavity at 3.8 x 10^10 at the FRIB400 operating gradient of 17.5 MV/m. We also find evidence that these results may be further improved upon, and make the case for further RF surface preparation recipe optimization. We then pair these high-power RF investigations with techniques borrowed from material science to try to better understand the ways in which specific properties of the niobium material, such as grain structure and superconducting flux pinning force, can be related to its superconducting RF performance. These experiments better elucidate the effects of high-temperature annealing on niobium samples, which suggest methods of further optimizing cavity flux expulsion and thus SRF performance.Read

McGee, Kellen E.↗

Pathway-based analyses of gene expression profiles at low doses of ionizing radiation

Radiation exposure poses a significant threat to human health. Emerging research indicates that even low-dose radiation once believed to be safe, may have harmful effects. This perception has spurred a growing interest in investigating the potential risks associated with low-dose radiation exposure across various scenarios. To comprehensively explore the health consequences of low-dose radiation, our study employs a robust statistical framework that examines whether specific groups of genes, belonging to known pathways, exhibit coordinated expression patterns that align with the radiation levels. Notably, our findings reveal the existence of intricate yet consistent signatures that reflect the molecular response to radiation exposure, distinguishing between low-dose and high-dose radiation. Moreover, we leverage a pathway-constrained variational autoencoder to capture the nonlinear interactions within gene expression data. By comparing these two analytical approaches, our study aims to gain valuable insights into the impact of low-dose radiation on gene expression patterns, identify pathways that are differentially affected, and harness the potential of machine learning to uncover hidden activity within biological networks. This comparative analysis contributes to a deeper understanding of the molecular consequences of low-dose radiation exposure.

63 RADIATION, THERMAL, AND OTHER ENVIRON. POLLUTAN↗

Generation of Data-Driven Expected Energy Models for Photovoltaic Systems

Although unique expected energy models can be generated for a given photovoltaic (PV) site, a standardized model is also needed to facilitate performance comparisons across fleets. Current standardized expected energy models for PV work well with sparse data, but they have demonstrated significant over-estimations, which impacts accurate diagnoses of field operations and maintenance issues. This research addresses this issue by using machine learning to develop a data-driven expected energy model that can more accurately generate inferences for energy production of PV systems. Irradiance and system capacity information was used from 172 sites across the United States to train a series of models using Lasso linear regression. The trained models generally perform better than the commonly used expected energy model from international standard (IEC 61724-1), with the two highest performing models ranging in model complexity from a third-order polynomial with 10 parameters (Radj2 = 0.994) to a simpler, second-order polynomial with 4 parameters (Radj2=0.993), the latter of which is subject to further evaluation. Subsequently, the trained models provide a more robust basis for identifying potential energy anomalies for operations and maintenance activities as well as informing planning-related financial assessments. We conclude with directions for future research, such as using splines to improve model continuity and better capture systems with low (≤1000 kW DC) capacity.

14 SOLAR ENERGY↗