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DOE OSTI2021

Peptide nucleic acid Hoogsteen strand linker design for major groove recognition of DNA thymine bases

Sequence-specific targeting of double-stranded DNA and non-coding RNA via triple-helix-forming peptide nucleic acids (PNAs) has attracted considerable attention in therapeutic, diagnostic and nanotechnological fields. An E-base (3-oxo-2,3-dihydropyridazine), attached to the polyamide backbone of a PNA Hoogsteen strand by a side-chain linker molecule, is typically used in the hydrogen bond recognition of the 4-oxo group of thymine and uracil nucleic acid bases in the major groove. We report on the application of quantum chemical computational methods, in conjunction with spatial constraints derived from the experimental structure of a homopyrimidine PNA·DNA-PNA hetero-triplex, to investigate the influence of linker flexibility on binding interactions of the E-base with thymine and uracil bases in geometry-optimised model systems. Hydrogen bond formation between the N2 E-base atom and target pyrimidine base 4-oxo groups in model systems containing a β-alanine linker (J Am Chem Soc 119:11116, 1997) was found to incur significant internal strain energy and the potential disruption of intra-stand aromatic base stacking interactions in an oligomeric context. Additionally, in geometry-optimised model systems containing a 3-trans olefin linker (Bioorg Med Chem Lett 14:1551, 2004) the E-base swung out away from the target pyrimidine bases into the solvent. These findings are in qualitative agreement with calorimetric measurements in hybridisation experiments at T–A and U–A inversion sites. In contrast, calculations on a novel 2-cis olefin linker design indicate that it could permit simultaneous E-base hydrogen bonding with the thymine 4-oxo group, circumvention and solvent screening of the thymine 5-methyl group, and maintenance of triplex intra-stand base stacking interactions.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2020

Implications of the Gaia sausage for dark matter nuclear interactions

The advent of the Gaia era has led to potentially revolutionary understanding of dark matter (DM) dynamics in our galaxy, which has important consequences for direct detection (DD) experiments. In this paper, we study how the empirical DM velocity distribution inferred from Gaia-sausage, a dominant substructure in the solar neighborhood, affects the interpretation of DD data. We survey different classes of operators in the nonrelativistic effective field theory that could arise from several relativistic benchmark models and emphasize that the Gaia velocity distribution could modify both the total number of events as well as the shape of the differential recoil spectra, the two primary observables in DD experiments. Employing the Euclideanized signal method, we investigate the effects of the Gaia distribution on reconstructing DM model parameters and identifying the correct DM model given a positive signal at future DD experiments. We find that for light DM with mass ~10 GeV, the Gaia distribution poses an additional challenge for characterizing DM interactions with ordinary matter, which may be addressed by combining complementary DD experiments with different targets and lowering the detection threshold. Meanwhile, for heavy DM with mass above ~30 GeV , depending on the type of DM model, there could be a (moderate) improvement in the sensitivity at future DD experiments.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2022

Spin-orbital liquids and insulator-metal transitions on the pyrochlore lattice

The two orbital Hubbard model, with the electrons additionally coupled to a complex magnetic background, arises in the pyrochlore molybdates. The background involves local moments Hund's coupled to the electrons, driving double exchange ferromagnetism, and antiferromagnetic (AF) tendency arising from competing superexchange. The key scales include the Hubbard repulsion and the superexchange, both of which can be tuned in these materials. They control the phase transition from a ferromagnetic metal to a spin glass metal and then to a spin glass (Mott) insulator. We provide a comprehensive description of the ground state of this model using an unrestricted Hartree-Fock scheme implemented via a simulated annealing procedure and establish the metal-insulator transition line for varying Hubbard interaction and superexchange. The electrons see an effective disorder, due to orbital frustration, already in the ferromagnetic phase. The disorder is further enhanced by antiferromagnetic coupling and the resulting magnetic disorder. As a result, increasing AF coupling shifts the metal-insulator transition to lower Hubbard interaction and gives it an additional "Anderson" character. In conclusion, we provide detailed results on the magnetic and orbital correlations, the density of states, and the optical conductivity.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2021

Non-additive microbial community responses to environmental complexity

Environmental composition is a major, though poorly understood, determinant of microbiome dynamics. Here we ask whether general principles govern how microbial community growth yield and diversity scale with an increasing number of environmental molecules. By assembling hundreds of synthetic consortia in vitro, we find that growth yield can remain constant or increase in a non-additive manner with environmental complexity. Conversely, taxonomic diversity is often much lower than expected. To better understand these deviations, we formulate metrics for epistatic interactions between environments and use them to compare our results to communities simulated with experimentally-parametrized consumer resource models. We find that key metabolic and ecological factors, including species similarity, degree of specialization, and metabolic interactions, modulate the observed non-additivity and govern the response of communities to combinations of resource pools. Our results demonstrate that environmental complexity alone is not sufficient for maintaining community diversity, and provide practical guidance for designing and controlling microbial ecosystems.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Statics and dynamics of skyrmions interacting with disorder and nanostructures

Magnetic skyrmions are topologically stable nanoscale particlelike objects that were discovered in 2009. Since that time, intense research interest in the field has led to the identification of numerous compounds that support skyrmions over a range of conditions spanning from cryogenic to room temperatures. Skyrmions can be set into motion under various types of driving, and the combination of their size, stability, and dynamics makes them ideal candidates for numerous applications. At the same time, skyrmions represent a new class of system in which the energy scales of the skyrmion-skyrmion interactions, sample disorder, temperature, and drive can compete. A growing body of work indicates that the static and dynamic states of skyrmions can be influenced strongly by pinning or disorder in the sample; thus, an understanding of such effects is essential for the eventual use of skyrmions in applications. The current state of knowledge regarding individual skyrmions and skyrmion assemblies interacting with quenched disorder or pinning is reviewed. Additionally, the microscopic mechanisms for skyrmion pinning, including the repulsive and attractive interactions that can arise from impurities, grain boundaries, or nanostructures, are outlined. This is followed by descriptions of depinning phenomena, sliding states over disorder, the effect of pinning on the skyrmion Hall angle, the competition between thermal and pinning effects, the control of skyrmion motion using ordered potential landscapes such as one- or two-dimensional periodic asymmetric substrates, the creation of skyrmion diodes, and skyrmion ratchet effects. Highlighted are the distinctions arising from internal modes and the strong gyrotropic or Magnus forces that cause the dynamical states of skyrmions to differ from those of other systems with pinning, such as vortices in type-II superconductors, charge density waves, or colloidal particles. Throughout this review future directions and open questions related to the pinning and dynamics in skyrmion systems are also discussed.

36 MATERIALS SCIENCE↗

DOE OSTI2021

Finite Element Analysis (FEA) for Water-Foam Fracturing of Granite Rock

In addition to the foam data that were obtained from literature and that were collected from the current study, simulation data was also generated from finite element analysis (FEA) conducted in this study using COMSOL Multiphysics software. The FEA models were built to simulate the experiments conducted at Oak Ridge National Laboratory (ORNL) on cement and granite samples. In these FEA models, temperature was kept at ambient while the pressure profile resembled the loading conditions during the ORNL experiments, where pressure was either monotonically increased or applied cyclically. The cement material was used as a model material and was used to study Von Mises stress and tensile stress distribution for different bore hole length geometry using a parametric sweep with water as fracturing fluid using solid-fluid interaction module. For the granite material, FEA models were developed for stress analysis of cylindrical samples with water or foam fluids. The solid mechanics module in COMSOL was implemented to solve for Von Mises stress and tensile stress. The fluid-structure interaction module was implemented to solve for water-foam interaction on granite cylinder with addition of fluid-loading on structure, i.e., large deformation in solid mechanics with no impact on fluid deformation. Foam was considered as a pseudo single-phase compressible fluid for which material properties were calculated from water and gas (nitrogen) phases. The density of foam is calculated as a function of the densities of water and nitrogen, while viscosity is a function of temperature. Four types of FEA analyses were modelled: 1. Monotonic injection with water 2. Monotonic injection with foam 3. Cyclic injection with water 4. Cyclic injection with foam All the COMSOL files are converted to a zip file which is save in .mph.

15 GEOTHERMAL ENERGY↗

DOE OSTI2026

Measuring Charged Current Muon Neutrino Cross Sections on Oxygen with the Accelerator Neutrino Neutron Interaction Experiment

The Accelerator Neutrino Neutron Interaction Experiment (ANNIE) is a $26$-ton gadolinium-doped water Cherenkov detector on-axis of the Booster Neutrino Beam (BNB) at Fermilab. With ANNIE, this dissertation provides the first results of a high statistics muon neutrino charged current cross section on oxygen at a short baseline on axis. This thesis explains the necessity of the measurements and details how the measurements are performed. Focus is given on the physics behind the models used to predict neutrino cross sections. The measurements include the CC inclusive and CC$0\pi$ cross section channels. This thesis details the processes of event selection, reconstruction, handling systematics, and unfolding as part of cross section measurements. A data unblinding procedure is documented and acts as the first implementation of data unblinding in ANNIE. These results provide additional constraints on existing neutrino interaction models and are the necessary steps for a joint analysis with liquid Argon experiments also on the BNB line.

Minock, James [Rutgers U., Piscataway (main)]↗

DOE OSTI2025

Infrasonic directivity of monopole, dipole and bipole ground-surface reflected sources

Infrasound (acoustic waves below 20 Hz) can be used to detect, locate and quantify activity in the atmosphere such as volcanic eruptions and anthropogenic explosions. Attempts to quantify volcanic eruption parameters such as exit velocity, plume height and mass flow rate using infrasound data depend strongly on assumptions of the acoustic source type. Infrasonic sources may produce omnidirectional or directional wavefields, while propagation effects, such as interaction with topography, can induce further wavefield directivity that is measured by field instrumentation. Limited sampling of these wavefields can hinder our ability to infer the underlying source, and thus our understanding of the eruption characteristics. Equivalent sources are often used to represent acoustic source mechanisms and resultant wavefields. In this study, we review equivalent acoustic sources as they pertain to infrasonic scale and wavelengths commonly encountered in very local (⁠<5 km range) geophysical field deployments. We highlight the equivalent infrasonic bipole source that can be induced by ground-reflection of an elevated monopole; we are not aware of any prior infrasound studies that use the bipole source concept. We use analytical and numerical methods to explore source directivity of monopole, dipole and bipole ground-reflected sources at infrasonic frequencies as well as the additional directivity complications introduced by interactions with topography. We illustrate that for typical volcano-infrasound wavelengths, increasing height above the ground as well as increasing source frequency leads to increased wavefield directivity. Numerical modelling using a simple omnidirectional monopole source embedded in topography further illustrates that both horizontal and vertical infrasound directionality can be induced by topography at the distance scales appropriate for local volcano infrasound monitoring. Information summarized in this analytical and numerical exploration of infrasound directivity may be used to help guide future volcano-infrasound field deployments intended to estimate source parameters or quantify wavefield directivity. Analytic solutions for simple whole-space or half-space atmospheres provide useful formulations for planning or initially analysing geophysical field-scale experimental data; however, especially at very local distances from the source (⁠<5 km), 3-D simulations are necessary to account for complex topography commonly encountered in volcano-infrasound applications.

Infrasound↗

DOE OSTI2022

High-Field Design Concept for Second Interaction Region of the Electron-Ion Collider

Efficient realization of the scientific potential of the Electron Ion Collider (EIC) calls for addition of a future second Interaction Region (2nd IR) and a detector in the RHIC IR8 region after the EIC project completion. The second IR and detector are needed to independently cross-check the results of the first detector, and to provide measurements with complementary acceptance. The available space in the existing RHIC IR8 and maximum fields achievable with NbTi superconducting magnet technology impose constraints on the 2nd IR performance. Since commissioning of the 2nd IR is envisioned in a few years after the first IR, such a long time frame allows for more R&D on the Nb₃Sn magnet technology. Thus, it could provide a potential alternative technology choice for the 2nd IR magnets. Presently, we are exploring its potential benefits for the 2nd IR performance, such as improvement of the luminosity and acceptance, and are also assessing the technical risks associated with use of Nb₃Sn magnets. In this paper, we present the current progress of this work.

43 PARTICLE ACCELERATORS↗

DOE OSTI2020

Competition between Solvation and Intramolecular Hydrogen-Bonding in Microsolvated Protonated Glycine and β-Alanine

Infrared predissociation (IRPD) spectroscopy is used to reveal and compare the microsolvation motifs of GlyH + (H 2 O) n and β-AlaH + (H 2 O) n . The chemical structure of these amino acids differ only in the length of the carbon chain connecting the amine and carboxyl terminals, which nonetheless leads to a significant difference in the strength of the intramolecular C=O···H-N hydrogen bond in the unsolvated ions. This difference makes them useful in our studies of the competition between solvation and internal hydrogen bonding interactions. Analysis of the IRPD results reveals that the sequential addition of water molecules leads to similar effects on the intramolecular interaction in both GlyH + (H 2 O) n and β-AlaH + (H 2 O) n . Solvation of the -NH 3 + group leads to a weakening of the C=O···H-N hydrogen bond, while solvation of the carboxyl -OH leads to a strengthening of this bond. Additionally, we have found that for β-AlaH + , the addition of a H 2 O to the second solvation shell can still influence the strength of the C=O···H-N hydrogen bonding interaction. Lastly because the C=O···H-N interaction in β-AlaH + is stronger than that in GlyH + , more solvent molecules are needed to sufficiently weaken the intramolecular hydrogen bond such that isomers without this bond begin to be energetically competitive; this occurs at n=5 for β-AlaH + and n=1 for GlyH + .

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2024

Holistic Small-Signal Stability Analysis for Large-Scale Inverter-Intensive Power Systems with Coupled and Full-Order Dynamics from Control Systems and Power Networks

The increasing penetration of inverter-based resources (IBRs) into the existing power systems introduces tremendous benefits for enhanced sustainability but also poses inevitable challenges in terms of insufficient inertia, potential instability, and complex network dynamics, among others. However, the additional coupling introduced by the interactions among gridfollowing (GFL) and grid-forming (GFM) IBRs and the other components (i.e., synchronous generators [SGs], loads, and network, etc.) has not been clearly explored. A holistic, scalable, and quantitative stability analysis framework with the control systems and power networks is still missing. Here, in this paper, to fill in the technical gaps, a holistic small-signal model of the entire system with both rotating generation units and IBRs is established. An extended power flow model with operation dynamics from both generator control schemes and power networks is proposed to provide the varying steady-state operating points for small-signal modeling. The proposed method is compared with MATLAB solvers, and the results show that the proposed approach has a minimum calculation time, which can be less than 12 seconds for a large-scale power system with up to 2,000 buses. Furthermore, a quantitative method is developed to identify the impacts of IBRs on system performance with emphases on the potential stability issues with GFL IBRs, additional benefits of employing GFM IBRs, the feasibility of replacing SGs with GFM IBRs, and the impact of penetration level of different kinds of generation units. Finally, a field island power system is used to verify the proposed approach, and hardware-in-the-loop (HIL) tests are provided to further demonstrate the effectiveness of the proposed analysis.

14 SOLAR ENERGY↗

DOE OSTI2024

Evaluation of In-Situ AM Process Monitoring Techniques and Potential for Detecting Process Anomalies and Undesirable Microstructures

The US Department of Energy’s Advanced Materials and Manufacturing Technologies (AMMT) program is pursuing rapid qualification of new materials for fabrication of nuclear relevant components using advanced manufacturing techniques. Particular interest is placed on code-qualifying stainless steel (SS) 316H processed by laser powder bed fusion (LPBF) additive manufacturing. A paradigm that incorporates data from in-situ sensing during the printing, ex-situ characterization, and advanced artificial intelligence–based models was established under the Transformation Challenge Reactor (TCR) program to develop a pedigree for each fabricated component that could be tracked from the feedstock to the component’s release for application. Under the TCR program, the Peregrine software was developed as a tool for incorporating the vast amounts of in-situ and ex-situ characterization data collected; all data stored on a rapidly growing digital platform. The digital platform allows for users to link site-specific process anomalies to the macro- and microstructure. The platform will eventually be able to predict component performance, which will be crucial to qualifying materials and components in risk-averse industries such as those supporting and building nuclear reactors. Current in-situ process monitoring techniques that are already integrated with software like Peregrine are advantageous for identifying process anomalies including powder spatter, component edge swelling, recoating-build interactions, and so on. However, additional data are required to fully predict the resulting microstructures needed for identifying relationships to component performance. The rapid cooling rates observed in LPBF are some of the highest of any bulk manufacturing process, resulting in heterogenous microstructures and typically causing anisotropy in mechanical properties. Moreover, evolved residual thermal stresses are high, which can cause severe defects such as delamination or cracking. Therefore, other in-situ monitoring methods are warranted for exploration to measure and map the thermal history, and potentially the stress state, of each build. This report summarizes different in-situ monitoring strategies proposed for LPBF with a focus on the more developed sensor systems. Novel capabilities for measuring melt pool temperatures are also addressed to better inform modeling efforts.

36 MATERIALS SCIENCE↗

DOE OSTI2023

Surface electron modulation of metal oxide‐based electrochemical devices by surface additives—linking sensors and fuel cells

Abstract The interaction between ambient oxygen and the metal oxide surface is central to various electrochemical devices. Solid oxide fuel cell cathodes and semiconducting metal oxide gas sensors are two prominent examples. Parallels between these two systems are highlighted in this perspective. In both cases, the presence of foreign surface species has been found to significantly alter the interactions of the metal oxides’ surfaces with oxygen. On the one hand, interactions are hindered due to the presence of certain impurities, such as the degradation of fuel cell cathode by Si‐species that originate from processing or from operating environments. On the other hand, electrochemically active noble metal additives have been intentionally used to tune the sensor response of metal oxides. In the case of electrochemically active additives, the need for operando spectroscopies to elucidate the mechanism is discussed. Electronic coupling of the surface additive with the metal oxide is found to play a central role in both cases. We use these results to demonstrate that insights gained from either field can be effectively applied to the other.

Materials Science↗

DOE OSTI2021

Fracture Mechanics—Theory, Modeling and Applications

The field of fracture mechanics was developed during the throes of World War II, and since then, it has been a very active area of research. This is a very energetic and vibrant field because fracture processes are relevant for a vast range of engineering applications spanning different temporal and length scales. Depending on the application, material fracture and fragmentation may be either a desirable feature (for example, for the purpose of hydraulic fracturing operations), or something that is to be avoided at all costs (for example, in key components of mechanical systems). In some other instances, fractures are already present and must be accommodated through novel design (for example, in the case of earthquake ruptures occurring in the Earth’s crust). Because of this wide spectra of motivation, there is a continuous need for the fracture mechanics research community to gain more insight on how fractures are created, evolve, and interact with themselves and with material microstructures. In addition, there are still many remaining questions about how fracture propagation, growth, and interaction impact overall material behavior, and how to develop accurate models to predict this behavior.

36 MATERIALS SCIENCE↗

DOE OSTI2024

Self–Healing and Stretchable Molecular Ferroelectrics with High Expandability

The interplay between crystal ordering and stretchability is frequently encountered in contemporary materials science, particularly in the case of ferroelectrics. The inherent dilemma arises when these materials need to withstand repetitive mechanical deformations or stretching without sacrificing their crystal integrity, all while retaining their remarkable ferroelectric properties and even exhibiting self-healing capabilities. This complexity further presents a significant challenge in the design and engineering of mechanically rigid molecular ferroelectric crystals, particularly for applications where both precise crystalline structure and mechanical adaptability are crucial. In this study, the humidity-controlled expansion and contraction, dissolution, and recrystallization of a self-assembled molecular ferroelectric-in-hydrogel framework are reported. Self-healing ferroelectric-in-hydrogel networks exhibit a recyclable humidity-tailored ionic conductivity from 2.86 × 10 –6 to 1.36 × 10 –5 S cm –1 , facilitating the stretchable piezoelectric sensing. Additionally, the dynamic bond reforming interactions are observed, leading to the tailoring of Young's modulus from 452 to 170 MPa, maintaining ferroelectricity under a strain of 20% with a piezoelectric coefficient of 15.7 pC N –1 . Upon lattice contraction, the molecular contacts undergo reforming, leading to the restoration of stretchable ferroelectrics/piezoelectrics and paving the way for stretchable bioelectronics for full-body motion monitoring. The capabilities highlighted here open avenues for stretchable and self-healing ferroelectric-in-hydrogel bioelectronic technologies.

36 MATERIALS SCIENCE↗

DOE OSTI2021

Influence of Intracrystalline Ionic Strength in MFI Zeolites on Aqueous Phase Dehydration of Methylcyclohexanols

Abstract The impact of the concentration of hydrated hydronium ions and in turn of the local ionic strength in MFI zeolites has been investigated for the aqueous phase dehydration of 4‐methylcyclohexanol (E1 mechanism) and cis ‐2‐methylcyclohexanol (E2 mechanism). The E2 pathway with the latter alcohol led to a 2.5‐fold higher activity. The catalytic activity normalized to the hydronium ions (turnover frequency, TOF) passed through a pronounced maximum, which is attributed to the increasing excess chemical potential of the alcohols in the pores, increasing in parallel with the ionic strength and the additional work caused by repulsive interactions and charge separation induced by the bulky alcohols. While the maximum in rate observed is invariant with the mechanism or substitution, the reaction pathway is influencing the activation parameters differently.

Milaković, Lara↗

DOE OSTI2021

Influence of Intracrystalline Ionic Strength in MFI Zeolites on Aqueous Phase Dehydration of Methylcyclohexanols

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2021

Back Cover: Influence of Intracrystalline Ionic Strength in MFI Zeolites on Aqueous Phase Dehydration of Methylcyclohexanols (Angew. Chem. Int. Ed. 47/2021)

Here the impact of the concentration of hydrated hydronium ions and in turn of the local ionic strength in MFI zeolites has been investigated for the aqueous phase dehydration of 4-methylcyclohexanol (E1 mechanism) and cis-2-methylcyclohexanol (E2 mechanism). The E2 pathway with the latter alcohol led to a 2.5-fold higher activity. The catalytic activity normalized to the hydronium ions (turnover frequency, TOF) passed through a pronounced maximum, which is attributed to the increasing excess chemical potential of the alcohols in the pores, increasing in parallel with the ionic strength and the additional work caused by repulsive interactions and charge separation induced by the bulky alcohols. While the maximum in rate observed is invariant with the mechanism or substitution, the reaction pathway is influencing the activation parameters differently.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗