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DOE OSTI2024

Superoxide Radicals in Uranyl Peroxide Solids: Lasting Signatures Identified by Electron Paramagnetic Resonance Spectroscopy

Abstract U(VI) peroxide phases (studtite and meta‐studtite) are found throughout the nuclear fuel cycle and exist as corrosion products in high radiation fields. Peroxides are part of a family of reactive oxygen species (ROS) that include hydroperoxyl and superoxide species and are produced during alpha radiolysis of water. While U(VI) peroxides have been thoroughly investigated, the incorporation and stability of ROS species within studtite have not been validated. In the current study, electron paramagnetic resonance (EPR) spectroscopy was used to identify the presence of free radicals within a series of U(VI) peroxide samples containing depleted, highly enriched, and natural uranium. Density functional theory calculations indicated that the predicted EPR signals matched well with a superoxide (O 2 − ⋅) species incorporated into the studtite structure, confirming the presence of ROS in the material. Further analysis of samples that were synthesized between 1945 and 2023 indicated that there is a correlation between the radical signal and the product of specific activity multiplied by age of the sample.

Scherrer, Sarah K.↗

DOE OSTI2024

Superoxide Radicals in Uranyl Peroxide Solids: Lasting Signatures Identified by Electron Paramagnetic Resonance Spectroscopy

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2019

Correlation of 3T multiparametric prostate MRI using prostate imaging reporting and data system (PIRADS) version 2 with biopsy as reference standard

Objective: To correlate the findings on 3T multiparametric prostate MRI using PIRADS version 2 with prostate biopsy results as the standard of reference. Materials and methods: 134 consecutive treatment naive patients (mean age 64 years, range 41–82 years) underwent MRI-directed prostate biopsy. MRI–TRUS fusion biopsy was used for 77 (77/134 = 57.5%) patients, cognitive fusion for 51 (51/134 = 38.0%) patients, and 6 patients (6/134 = 4.5%) without a target nodule had systematic biopsy only. Out of the 1676 biopsy sites, 237 (237/1676 = 14.1%) were positive on MRI for a PIRADS 3, 4, or 5 nodule. Fifty-eight (58/134, 43.3%) patients had clinically significant prostate cancer (csPCa). The findings on MRI using PIRADS version 2 were correlated with the biopsy results. Results: The accuracy, sensitivity, specificity, positive predictive value, and negative predictive value of PIRADS ≥ 3 for csPCa were 89%, 76.5%, 89.7%, 31.7%, and 98.4%, respectively. The detection rates of csPCa for PIRADS 3, 4, and 5 nodules were 6.1% (4/66), 33.3% (42/126), and 64.4% (29/45), respectively. MRI did not identify a nodule in 23/1676 (1.4%) biopsy sites that contained csPCa. The MRI reader, biopsy operator, method of fusion biopsy, and zonal location of prostate nodule did not significantly affect the odds of having a biopsy result positive for csPCa. Conclusion: PIRADS ≥ 3 had high specificity and high negative predictive value for csPCa using biopsy results as the standard of reference. The presence of csPCa from a biopsy site was highly unlikely in the absence of a corresponding PIRADS ≥ 3 nodule.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

DOE OSTI2017

An Electrospray Ionization Mass Spectrometry Study on the “In Vacuo” Hetero-Oligomers Formed by the Antimicrobial Peptides, Surfactin and Gramicidin S

It was previously observed that the lipopeptide surfactants in surfactin (Srf) have an antagonistic action towards the highly potent antimicrobial cyclodecapeptide, gramicidin S (GS). This study reports on some of the molecular aspects of the antagonism as investigated through complementary electrospray ionization mass spectrometry techniques. We were able to detect stable 1:1 and 2:1 hetero-oligomers in a mixture of surfactin and gramicidin S. The noncovalent interaction between GS and Srf, with the proposed equilibrium: GS~Srf↔GS+Srf correlated to apparent K{sub d} values of 6–9 μM in gas-phase and 1 μM in aqueous solution. The apparent K{sub d} values decreased with a longer incubation time and indicated a slow oligomerization equilibrium. Furthermore, the low μM K{sub d}{sup app} values of GS~Srf↔GS+Srf fell within the biological concentration range and related to the 2- to 3-fold increase in [GS] needed for bacterial growth inhibition in the presence of Srf. Competition studies indicated that neither Na{sup +} nor Ca{sup 2+} had a major effect on the stability of preformed heterodimers and that GS in fact out-competed Ca{sup 2+} and Na{sup +} from Srf. Traveling wave ion mobility mass spectrometry revealed near symmetrical peaks of the heterodimers correlating to a compact dimer conformation that depend on specific interactions. Collision-induced dissociation studies indicated that the peptide interaction is most probably between one Orn residue in GS and the Asp residue, but not the Glu residue in Srf. We propose that flanking hydrophobic residues in both peptides stabilize the antagonistic and inactive peptide hetero-oligomers and shield the specific polar interactions in an aqueous environment. .

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2017

General tradeoff relations of quantum nonlocality in the Clauser–Horne–Shimony–Holt scenario

General tradeoff relations present in nonlocal correlations of bipartite systems are studied, regardless of any specific quantum states and measuring directions. Extensions to multipartite scenarios are possible and very promising. Tsirelson’s bound can be derived out in particular. The close connection with uncertainty relations is also presented and discussed. - Highlights: • Quantum violation of CHSH inequalities is found to satisfy tradeoff relations. • Tsirelson’s bound for quantum mechanics can be directly implied from these tradeoffs. • Tradeoff relations shed new light on uncertainty relations in summation forms.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2019

Distinct evolution of the carbonaceous and non-carbonaceous reservoirs: Insights from Ru, Mo, and W isotopes

Recent work has identified a nucleosynthetic isotope dichotomy between “carbonaceous” (CC) and “non-carbonaceous” (NC) meteorites. Here in this paper, we report new Ru isotope data for rare iron meteorite groups belonging to the NC and CC suites. We show that by studying the relative isotopic characteristics of Ru, Mo, and W in iron meteorites, it is possible to constrain the processes leading to the distinct isotope heterogeneities in both reservoirs. In NC meteorites, internally normalized, mass-independent isotope ratios of Mo and Ru are correlated, but those of Mo and W are not. In CC meteorites, Mo and W isotope ratios are correlated, but those of Mo and Ru are not; specifically, Mo isotopic compositions are variable and those of Ru are more restricted. The contrasting behaviors of Ru and W relative to Mo in the two reservoirs likely require processing of the presolar carriers under distinct redox conditions. This provides further evidence that NC and CC meteorites originated from spatially separated reservoirs that evolved under different prevailing conditions.

58 GEOSCIENCES↗

DOE OSTI2018

Anharmonicity of the vibrational modes of phase-change materials: A far-infrared, terahertz, and Raman study

Phase-change materials are employed as active elements in optical and electronic memory devices. Upon crystallization, their visible and near-infrared dielectric properties change dramatically due to the formation of resonant bonds, a unique type of bond related to both metallic and covalent bonds. In this work we study the change of the anharmonicity upon crystallization as well as the impact of vacancy concentration and vacancy ordering on the anharmonicity. Our temperature-dependent study of vibrational modes directly reveals a correlation between anharmonicity, vacancy concentration, and ordering. Previously, such a correlation was derived only indirectly from measurements of the specific heat. Furthermore, the pronounced far-infrared contrast, even larger than the optical one, can enable the application of phase-change materials in photonic devices.

36 MATERIALS SCIENCE↗

DOE OSTI2025

Impact of Pendant Amine Basicity on Electrochemically-Promoted Cobalt Hydride Formation: Kinetic and Mechanistic Analysis

Here, we report the role of pendant amine basicity on the proton-coupled electron transfer (PCET) reactivity for the conversion of [Co III Cp(P Ph 2 N R 2 )(CH 3 CN)] 2+ complexes to [HCo III Cp(P Ph 2 N R 2 )] + , which is a key transformation involved in catalytic CO 2 conversion to formate and in H 2 evolution. Three complexes were studied, where the amine substituent (R) varies from benzyl, methoxyphenyl, or phenyl. In previous work on the benzyl system, we showed that the amine on the P Ph 2 N Bn 2 ligand serves as a kinetically accessible protonation site and enables three participating hydride formation mechanisms. In this work, a combination of electrochemical measurements and theoretical calculations were used to show that the electronic donation at the pendant amine influences the accessible PCET mechanism and proton transfer kinetics related to cobalt hydride formation under analogous reaction conditions. Notably, the amine with the most electron-donating substituent correlates to the lowest barrier for amine protonation, and specific cobalt hydride formation mechanisms can be shut off for the amine with the least electron-donating substituent. The mechanistic and kinetic changes upon modulation of the amine substituent have great implications for overall catalytic efficiency and selectivity, especially to generate the cobalt hydride intermediate involved in selective CO 2 reduction to formate. This work shows how to exploit kinetic basicity using ligand-cooperative design to facilitate PCET reactions involved in energy related transformations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2017

Structure and Functional Analysis of ClbQ, an Unusual Intermediate-Releasing Thioesterase from the Colibactin Biosynthetic Pathway

Colibactin is a genotoxic hybrid nonribosomal peptide/polyketide secondary metabolite produced by various pathogenic and probiotic bacteria residing in the human gut. The presence of colibactin metabolites has been correlated to colorectal cancer formation in several studies. The specific function of many gene products in the colibactin gene cluster can be predicted. However, the role of ClbQ, a type II editing thioesterase, has not been established. The importance of ClbQ has been demonstrated by genetic deletions that abolish colibactin cytotoxic activity, and recent studies suggest an atypical role in releasing pathway intermediates from the assembly line. Here we report the 2.0 Å crystal structure and biochemical characterization of ClbQ. Our data reveal that ClbQ exhibits greater catalytic efficiency toward acyl-thioester substrates as compared to precolibactin intermediates and does not discriminate among carrier proteins. Cyclized pyridone-containing colibactins, which are off-pathway derivatives, are not viable substrates for ClbQ, while linear precursors are, supporting a role of ClbQ in facilitating the promiscuous off-loading of premature precolibactin metabolites and novel insights into colibactin biosynthesis.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2022

Disentangling Alzheimer’s disease neurodegeneration from typical brain ageing using machine learning

Abstract Neuroimaging biomarkers that distinguish between changes due to typical brain ageing and Alzheimer’s disease are valuable for determining how much each contributes to cognitive decline. Supervised machine learning models can derive multivariate patterns of brain change related to the two processes, including the Spatial Patterns of Atrophy for Recognition of Alzheimer’s Disease (SPARE-AD) and of Brain Aging (SPARE-BA) scores investigated herein. However, the substantial overlap between brain regions affected in the two processes confounds measuring them independently. We present a methodology, and associated results, towards disentangling the two. T1-weighted MRI scans of 4054 participants (48–95 years) with Alzheimer’s disease, mild cognitive impairment (MCI), or cognitively normal (CN) diagnoses from the Imaging-based coordinate SysTem for AGIng and NeurodeGenerative diseases (iSTAGING) consortium were analysed. Multiple sets of SPARE scores were investigated, in order to probe imaging signatures of certain clinically or molecularly defined sub-cohorts. First, a subset of clinical Alzheimer’s disease patients (n = 718) and age- and sex-matched CN adults (n = 718) were selected based purely on clinical diagnoses to train SPARE-BA1 (regression of age using CN individuals) and SPARE-AD1 (classification of CN versus Alzheimer’s disease) models. Second, analogous groups were selected based on clinical and molecular markers to train SPARE-BA2 and SPARE-AD2 models: amyloid-positive Alzheimer’s disease continuum group (n = 718; consisting of amyloid-positive Alzheimer’s disease, amyloid-positive MCI, amyloid- and tau-positive CN individuals) and amyloid-negative CN group (n = 718). Finally, the combined group of the Alzheimer’s disease continuum and amyloid-negative CN individuals was used to train SPARE-BA3 model, with the intention to estimate brain age regardless of Alzheimer’s disease-related brain changes. The disentangled SPARE models, SPARE-AD2 and SPARE-BA3, derived brain patterns that were more specific to the two types of brain changes. The correlation between the SPARE-BA Gap (SPARE-BA minus chronological age) and SPARE-AD was significantly reduced after the decoupling (r = 0.56–0.06). The correlation of disentangled SPARE-AD was non-inferior to amyloid- and tau-related measurements and to the number of APOE ε4 alleles but was lower to Alzheimer’s disease-related psychometric test scores, suggesting the contribution of advanced brain ageing to the latter. The disentangled SPARE-BA was consistently less correlated with Alzheimer’s disease-related clinical, molecular and genetic variables. By employing conservative molecular diagnoses and introducing Alzheimer’s disease continuum cases to the SPARE-BA model training, we achieved more dissociable neuroanatomical biomarkers of typical brain ageing and Alzheimer’s disease.

Hwang, Gyujoon↗

DOE OSTI2026

Unexpected Rise in Nuclear Collectivity from Short-Range Physics

We discover a surprising relation between the collective motion of nucleons within atomic nuclei, traditionally understood to be driven by long-range correlations, and short-range nucleon-nucleon interactions. Specifically, we find that quadrupole collectivity in low-lying states of 6 Li and 12 C, calculated with state-of-the-art ab initio techniques, is significantly influenced by two opposing 𝑆-wave contact couplings that subtly alter the surface oscillations of one largely deformed nuclear shape, without changing that shape’s overall contribution within the nucleus. The results offer new insights into the nature of emergent nuclear collectivity and its link to the underlying nucleon-nucleon interaction at short distances.

Ab initio calculations↗

DOE OSTI2018

Low-lying states in Ra 219 and Rn 215 : Sampling microsecond α -decaying nuclei

Short-lived α-decaying nuclei “northeast” of 208 Pb in the chart of nuclides were studied using the reaction 48 Ca + 243 Am with the decay station TASISpec at TASCA, GSI Darmstadt. Here, the decay energies and times from pile-up events were extracted with a tailor-made pulse-shape analysis routine and specific α-decay chains were identified in a correlation analysis. Decay chains starting with the even-even 220 Ra and its odd- A neighbors, 219 Fr, and 221,219 Ra, with a focus on the 219 Ra → 215 Rn decay, were studied by means of α–γ spectroscopy. A revised α-decay scheme of 219 Ra is proposed, including a new decay branch from a previously not considered isomeric state at 17 keV excitation energy. Conclusions on nuclear structure are drawn from the experimental data, aided by Geant4 simulations and a discussion on theoretical calculations.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE OSTI2023

Cosmological forecasts for future galaxy surveys with the linear point standard ruler: Toward consistent BAO analyses far from a fiducial cosmology

The linear point (LP) standard ruler was identified as the basis of a purely geometric method for exploiting the baryon acoustic oscillations (BAO). The LP exploits the BAO feature imprinted in the galaxy two-point correlation function to measure cosmological distances independent of any specific cosmological model. We forecast the expected precision of future and ongoing spectroscopic galaxy surveys to measure distances leveraging the linear point. We investigate the cosmological implications of our forecasted results. We focus in particular on a relevant working example: the detection of the late-time cosmic acceleration independent of other cosmological probes. Further, our findings show that, even within the Λ⁢CDM standard cosmological paradigm, estimated distances need to be reliable over a very wide parameter range in order to realize their maximum utility. This is particularly relevant if we aim to properly characterize cosmological tensions. The LP is a promising candidate approach to achieve this reliability. In contrast, widely employed procedures in BAO analysis estimate distances keeping fixed cosmological parameters to fiducial values close to cosmic-microwave-background constraints in flat-Λ⁢CDM. It is unclear whether they are purely geometric methods. Moreover, they rely on untested extrapolations to explore the parameter space away from those fiducial flat-Λ⁢CDM values. We recommend that all BAO methodologies be validated across the full range of models and parameters over which their results are quoted, first by means of linear predictions and then N -body simulations.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2017

Divergent taxonomic and functional responses of microbial communities to field simulation of aeolian soil erosion and deposition

Aeolian soil erosion and deposition have worldwide impacts on agriculture, air quality and public health. Yet, ecosystem responses to soil erosion and deposition remain largely unclear in regard to microorganisms, which are the crucial drivers of biogeochemical cycles. Using integrated metagenomics technologies, we analysed microbial communities subjected to simulated soil erosion and deposition in a semiarid grassland of Inner Mongolia, China. As expected, soil total organic carbon and plant coverage were decreased by soil erosion, and soil dissolved organic carbon (DOC) was increased by soil deposition, showing that field simulation was reliable. Soil microbial communities were altered ( p < .039) by both soil erosion and deposition, with dramatic increase in Cyanobacteria related to increased stability in soil aggregates. amyA genes encoding α-amylases were specifically increased ( p = .01) by soil deposition and positively correlated ( p = .02) to DOC, which likely explained changes in DOC. Surprisingly, most of microbial functional genes associated with carbon, nitrogen, phosphorus and potassium cycling were decreased or unaltered by both erosion and deposition, probably arising from acceleration of organic matter mineralization. These divergent responses support the necessity to include microbial components in evaluating ecological consequences. Moreover, Mantel tests showed strong, significant correlations between soil nutrients and functional structure but not taxonomic structure, demonstrating close relevance of microbial function traits to nutrient cycling.

16S rRNA sequencing↗

DOE OSTI2025

CQM-Analysis v1.0

This repository contains the data and code necessary to reproduce the primary analysis and figures for the manuscript "Pathways to productivity: mapping the relationship between multimodal transportation infrastructure, commute quality, and economic vitality for the United States workforce". The analysis demonstrates a newly defined commute quality metric (CQM) characterizing the quality, as a monetized consumer surplus, of travel for the purpose of work for every census tract in the continental United States. The analysis additionally demonstrates the correlation of that CQM with key economic vitality indicators. Specifically median household income and unemployment rate.

Spurlock, C Anna [Lawrence Berkeley National Labor↗

DOE OSTI2018

Gene network analysis of poplar root transcriptome in response to drought stress identifies a PtaJAZ3PtaRAP2.6-centered hierarchical network

Using time-series transcriptomic data from poplar roots undergoing polyethylene glycol (PEG)-induced drought stress, we built a genetic network model of the involved putative molecular responses. We found that the network resembled a hierarchical structure. The highest hierarchical level in this structure is occupied by 9 genes, which we called superhubs because they were primarily connected to 18 hub genes, which are then connected to 2,934 terminal genes. We were only able to regenerate transgenic plants overexpressing two of the superhubs, suggesting that the majority of the superhubs might interfere with the regeneration process and did not allow recovery of transgenic plants. The two superhubs encode proteins with closest homology to JAZ3 and RAP2.6 genes of Arabidopsis and were consequently named PtaJAZ3 and PtaRAP2.6. PtaJAZ3 and PtaRAP2.6 overexpressing transgenic lines showed a significant increase in both root elongation and lateral root proliferation and these responses were specific for the drought stress conditions and were highly correlated with the levels of overexpression of the transgenes. Several lines of evidence suggest of regulatory interactions between the two superhubs. Both superhubs were significantly induced by methyl jasmonate (MeJA). Because jasmonate signaling involves ubiquitin-mediated proteasome degradation, treatment with proteasome inhibitor abolished the MeJA induction for both genes. PtaRAP2.6 was upregulated in PtaJAZ3 transgenics but PtaJAZ3 expression was not affected in the PtaRAP2.6 overexpressors. The discovery of the two genes and further future insights into the associated mechanisms can lead to improved understanding and novel approaches to regulate root architecture in relation to drought stress.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

Emergent Phenomena at Mott Interfaces – a Time- and Depth-Resolved Approach (Final Technical Report)

This is the final technical report for Award DE-SC0019297, Emergent Phenomena at Mott Interfaces – a Time- and Depth-Resolved Approach. This research program aimed to address the scientific questions related to the emergence and control of non-equilibrium electronic phases of matter in strongly correlated Mott oxides and their interfaces. We were focusing specifically on exploiting the interfaces in heterostructures and superlattices, containing Mott oxides CaMnO 3 and LaNiO 3 because in such systems, precise control of electronic and magnetic structure in the ground state can be achieved through dimensionality, heterostructuring, interface termination, and lattice strain. We utilized advanced x-ray spectroscopic and scattering techniques, to investigate these phenomena. Additionally, we used intense THz electric-field pulses generated by a femtosecond laser to directly modify the electronic structure and magnetic states of the ultrathin LaNiO 3 and CaMnO 3 layers in such heterostructures, with the objectives of disentangling, understanding, and harnessing control over the intricate competing interactions responsible for two-dimensional magnetism and metal-insulator transition at the interfaces.

36 MATERIALS SCIENCE↗

DOE OSTI2025

Correlating Nb-SRF Surface Processing with Evolution of Surface Electronic States

The few nanometers of the surface exposed to RF field plays a major role in defining the RF performance of superconducting cavities. Over the past two decades, several pioneering surface treatment and processing methods have emerged, enabling remarkable improvements in cavity performance by simultaneously achieving high Q with increasing Eacc. These processing methods include: thermal treatment under ultra-high vacuum (UHV) conditions across lo¬¬¬¬¬¬¬w-, mid-, and high-temperature ranges and high temperature treatments under controlled N2 atmosphere. These processes also produce distinct surface oxide configurations with different valence states, thicknesses, and uniformity, as well as different oxygen concentration profiles in bulk Nb. In this work, we are trying to understand how do surface-processing methods and the resulting oxide/oxygen profiles affect the electronic structure of surface and the mechanism of superconductivity? With the help of Fermilab’s in-house X-ray photoemission facility and, in collaboration with the synchrotron-based angle-resolved photoemission (ARPES) facility at Argonne National Laboratory, we are investigating how the valence band structure and density of states (DoS) near the Fermi level modify with different surface treatments. Our observations show that different surface-processing methods lead to distinct evolutions of the valence-band states near the Fermi level during the superconducting transition. This behavior suggests variations in Nb-O orbital hybridizations and points towards the possibility of different underlying mechanisms of superconductivity governed by the surface chemistry and oxide configuration. We also correlate these distinct superconducting mechanisms with RF cavity performance, specifically focusing on measured surface resistance, the nature of the Q-slope, and quench fields observed in SRF measurements. These results will enable us to identify the potential limiting factors and relevant controllable parameters that can be further optimized to improve the performance of SRF cavities.

Tripathi, Malvika [Fermilab]↗