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DOE OSTI2023

Resolving protein-mineral interfacial interactions during in vitro mineralization by atom probe tomography

Organic macromolecules exert remarkable control over the nucleation and growth of inorganic crystallites during (bio)mineralization, as exemplified during enamel formation where the protein amelogenin regulates the formation of hydroxyapatite (HAP). However, it is poorly understood how fundamental processes at the organic-inorganic interface, such as protein adsorption and/or incorporation into minerals, regulates nucleation and crystal growth due to technical challenges in observing and characterizing mineral-bound organics at high-resolution. Here, atom probe tomography techniques were developed and applied to characterize amelogenin-mineralized HAP particles in vitro, revealing distinct organic-inorganic interfacial structures and processes at the nanoscale. Specifically, visualization of amelogenin across the mineralized particulate demonstrates protein can become entrapped during HAP crystal aggregation and fusion. Identification of protein signatures and structural interpretations were further supported by standards analyses, i.e., defined HAP surfaces with and without amelogenin adsorbed. These findings represent a significant advance in the characterization of interfacial structures and, more so, interpretation of fundamental organic-inorganic processes and mechanisms influencing crystal growth. Ultimately, this approach can be broadly applied to inform how potentially unique and diverse organic-inorganic interactions at different stages regulates the growth and evolution of various biominerals.

36 MATERIALS SCIENCE↗

DOE OSTI2021

Nonlinear dynamics of topological Dirac fermions in 2D spin-orbit coupled materials

Abstract The graphene family materials are two-dimensional staggered monolayers with a gapped energy band structure due to intrinsic spin-orbit coupling. The mass gaps in these materials can be manipulated on-demand via biasing with a static electric field, an off-resonance circularly polarized laser, or an exchange interaction field, allowing the monolayer to be driven through a multitude of topological phase transitions. We investigate the dynamics of spin-orbit coupled graphene family materials to unveil topological phase transition fingerprints embedded in the nonlinear regime and show how these signatures manifest in the nonlinear Kerr effect and in third-harmonic generation processes. We show that the resonant nonlinear spectral response of topological fermions can be traced to specific Dirac cones in these materials, enabling characterization of topological invariants in any phase by detecting the cross-polarized component of the electromagnetic field. By shedding light on the unique processes involved in harmonic generation via topological phenomena our findings open an encouraging path towards the development of novel nonlinear systems based on two-dimensional semiconductors of the graphene family.

36 MATERIALS SCIENCE↗

DOE OSTI2022

Inferring dark matter substructure with astrometric lensing beyond the power spectrum

Abstract Astrometry—the precise measurement of positions and motions of celestial objects—has emerged as a promising avenue for characterizing the dark matter population in our Galaxy. By leveraging recent advances in simulation-based inference and neural network architectures, we introduce a novel method to search for global dark matter-induced gravitational lensing signatures in astrometric datasets. Our method based on neural likelihood-ratio estimation shows significantly enhanced sensitivity to a cold dark matter population and more favorable scaling with measurement noise compared to existing approaches based on two-point correlation statistics. We demonstrate the real-world viability of our method by showing it to be robust to non-trivial modeled as well as unmodeled noise features expected in astrometric measurements. This establishes machine learning as a powerful tool for characterizing dark matter using astrometric data.

convolutional neural networks (1938)↗

DOE OSTI2016

Three-dimensional Majorana fermions in chiral superconductors

Using a systematic symmetry and topology analysis, we establish that three-dimensional chiral superconductors with strong spin-orbit coupling and odd-parity pairing generically host low-energy nodal quasiparticles that are spin-nondegenerate and realize Majorana fermions in three dimensions. By examining all types of chiral Cooper pairs with total angular momentum J formed by Bloch electrons with angular momentum j in crystals, we obtain a comprehensive classification of gapless Majorana quasiparticles in terms of energy-momentum relation and location on the Fermi surface. We show that the existence of bulk Majorana fermions in the vicinity of spin-selective point nodes is rooted in the nonunitary nature of chiral pairing in spin-orbit–coupled superconductors. We address experimental signatures of Majorana fermions and find that the nuclear magnetic resonance spin relaxation rate is significantly suppressed for nuclear spins polarized along the nodal direction as a consequence of the spin-selective Majorana nature of nodal quasiparticles. Furthermore, Majorana nodes in the bulk have nontrivial topology and imply the presence of Majorana bound states on the surface, which form arcs in momentum space. We conclude by proposing the heavy fermion superconductor PrOs 4 Sb 12 and related materials as promising candidates for nonunitary chiral superconductors hosting three-dimensional Majorana fermions.

36 MATERIALS SCIENCE↗

DOE OSTI2019

Spall and re-compaction in OFHC copper under high velocity impact

Copper spall and re-compaction experiments were performed with a single stage large bore (76.2 mm) light gas gun capable of planar impacts at low impact velocity. The experiments used PDV to capture the velocity history of the back surface of the target and the projectile velocity (collimating probes). The tilts for these experiments typically range from 1–2 mrad. A re-compaction wave was clearly observed using Photon Doppler Velocimetry (PDV) on the back surface of the copper target as well as identified using Electron Backscatter Diffraction (EBSD) in the recovered samples. The spall and re-compaction data are similar until re-compaction occurs; the time-resolved data show clear evidence for spall damage in the first case and spall followed by re-compaction in the second case. For the initial spall signature, ringing consistent with half the thickness of the target is observed in all cases; after re-compaction, ringing is observed that is consistent with the full sample thickness. Samples recovered using the soft catch system were analyzed, and the cross-sectional view from the spalled target clearly showed a spall plane with voids, whereas the re-compaction target showed an area of plastic deformation. It is hypothesized that the voids formed by spall close during re-compaction and leave behind a deformed area.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2018

Unequivocal signatures of the crossover to Anderson localization in realistic models of disordered quasi-one-dimensional materials

The only unequivocal known criterion for single-parameter scaling Anderson localization relies on the knowledge of the full conductance statistics. To date, theoretical studies have been restricted to model systems with symmetric scatterers, hence lacking universality. Here, we present an in-depth statistical study of conductance distributions P(g), in disordered ‘micrometer-long’ carbon nanotubes using first principles simulations. In perfect agreement with the Dorokov-Mello-Pereyra-Kumar scaling equation, the computed P(g) exhibits a nontrivial, non-Gaussian, crossover to Anderson localization which could be directly compared with experiments.

36 MATERIALS SCIENCE↗

DOE OSTI2026

The General Antiparticle Spectrometer (GAPS) Antarctic Balloon Payload

The General Antiparticle Spectrometer (GAPS) is an Antarctic stratospheric balloon mission designed to provide unmatched sensitivity to low-energy (<0.25 GeV/n) cosmic-ray antiprotons, antideuterons, and antihelium nuclei as signatures of dark matter. The distinctive GAPS particle identification technique relies on measuring the energy loss along the track of an incoming antinucleus as it slows down and is captured into an exotic atom, and then detecting the de-excitation X-rays and the nuclear annihilation products. This measurement is realized using a Tracker composed of more than 1000 custom silicon strip detectors and a plastic scintillator time-of-flight (TOF) system instrumenting more than 40m$^2$. Together, these subsystems provide the velocity and energy resolution, stopping power, particle tracking, and X-ray identification necessary to distinguish rare antinucleus signals from the abundant positive-nucleus backgrounds, all within the constraints of a high-altitude mission. A multi-loop capillary heat pipe system has been developed to maintain the tracker operating temperature with significant mass and power savings over a conventional pump-based system. The first GAPS science payload flew for 25 days during the 2025/26 NASA Antarctic balloon campaign. We detail the design, integration, and commissioning of the payload prior to flight.

Aoyama, Kazutaka [JAXA, Sagamihara]↗

DOE OSTI2024

Signature of Correlated Insulator in Electric Field Controlled Superlattice

On a two-dimensional crystal, a “superlattice” with nanometer-scale periodicity can be imposed to tune the Bloch electron spectrum, enabling novel physical properties inaccessible in the original crystal. While creating 2D superlattices by means of nanopatterned electric gates has been studied for band structure engineering in recent years, evidence of electron correlations-which drive many problems at the forefront of physics research-remains to be uncovered. Here, in this work, we demonstrate signatures of a correlated insulator phase in Bernal-stacked bilayer graphene modulated by a gate-defined superlattice potential, manifested as resistance peaks centered at integer multiples of single electron per superlattice unit cell carrier densities. The observation is consistent with the formation of a stack of flat low-energy bands due to the superlattice potential combined with inversion symmetry breaking. Our work paves the way to custom-designed superlattices for studying band structure engineering and strongly correlated electrons in 2D materials.

36 MATERIALS SCIENCE↗

DOE OSTI2019

Phonon-induced plasmon-exciton coupling changes probed via oscillation-associated spectra

Coherent vibrations detected in optical experiments can offer insights into material properties and electronic interactions, but also yield complex time-dependent optical signatures, especially in hybridized systems. In this work, we conform to techniques from studies on vibrational wave packets in molecules to analyze the optical signatures of coherent acoustic phonons in nanoparticles. This strategy enables us to better understand the implications of energetic changes induced by coherent phonons. Then, we apply this approach to systems that target coherent acoustic phonons as a route to modulate plasmon-exciton coupling and compare the results to theoretical calculations. Taken together, the described approach provides an intuitive, simple means of analyzing future systems and facilitates attempts to utilize, rather than simply observe, nanomaterial phonon modes.

36 MATERIALS SCIENCE↗

DOE OSTI2013

LC-IMS-MS Feature Finder. Detecting Multidimensional Liquid Chromatography, Ion Mobility, and Mass Spectrometry Features in Complex Datasets

We introduce a command line software application LC-IMS-MS Feature Finder that searches for molecular ion signatures in multidimensional liquid chromatography-ion mobility spectrometry-mass spectrometry (LC-IMS-MS) data by clustering deisotoped peaks with similar monoisotopic mass, charge state, LC elution time, and ion mobility drift time values. The software application includes an algorithm for detecting and quantifying co-eluting chemical species, including species that exist in multiple conformations that may have been separated in the IMS dimension.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2013

Genomes of the class Erysipelotrichia clarify the firmicute origin of the class Mollicutes

The tree of life is paramount for achieving an integrated understanding of microbial evolution and the relationships between physiology, genealogy and genomics. It provides the framework for interpreting environmental sequence data, whether applied to microbial ecology or to human health. However, there remain many instances where there is ambiguity in our understanding of the phylogeny of major lineages, and/or confounding nomenclature. Here we apply recent genomic sequence data to examine the evolutionary history of members of the classes Mollicutes (phylum Tenericutes) and Erysipelotrichia (phylum Firmicutes). Consistent with previous analyses, we find evidence of a specific relationship between them in molecular phylogenies and signatures of the 16S rRNA, 23S rRNA, ribosomal proteins and aminoacyl-tRNA synthetase proteins. Furthermore, by mapping functions over the phylogenetic tree we find that the erysipelotrichia lineages are involved in various stages of genomic reduction, having lost (often repeatedly) a variety of metabolic functions and the ability to form endospores. Although molecular phylogeny has driven numerous taxonomic revisions, we find it puzzling that the most recent taxonomic revision of the phyla Firmicutes and Tenericutes has further separated them into distinct phyla, rather than reflecting their common roots.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2020

Local probes for quantum Hall ferroelectrics and nematics

Two-dimensional multivalley electronic systems in which the dispersion of individual pockets has low symmetry give rise to quantum Hall ferroelectric and nematic states in the presence of strong quantizing magnetic fields. In this work, we investigate the local signatures of these states arising near impurities that can be probed via scanning tunneling microscopy (STM) spectroscopy. For quantum Hall ferroelectrics, we demonstrate a direct relation between the dipole moment measured at impurity bound states and the ideal bulk dipole moment obtained from the modern theory of polarization. We also study the many-body problem with a single impurity via exact diagonalization and find that near strong impurities a nontrivial excitonic state can form with specific features that can be easily identified via STM spectroscopy.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2017

A Conceptual Model for the Response of Tropical Rainfall to Orbital Variations

Tropical rainfall to first order responds to variations in Earth’s orbit through shifts of the intertropical convergence zone (ITCZ) and changes in zonally averaged rainfall intensity. Here, a conceptual model is developed that represents both processes and their response to orbital insolation variations. The model predicts the seasonal evolution of tropical rainfall between 30°S and 30°N. Insolation variations impact seasonal rainfall in two different ways: thermodynamically, leading to variations in rainfall intensity through modulation of the water vapor content of the atmosphere; and dynamically, leading to shifts of the ITCZ through modulation of the global atmospheric energy budget. Thermodynamic and dynamic effects act together to shape the annual-mean response of tropical rainfall to changes in Earth’s orbit. The model successfully reproduces changes in annual-mean rainfall inferred from paleo-proxies across several glacial–interglacial cycles. It illuminates how orbital precession and variations of Earth’s obliquity affect tropical rainfall in distinct ways near the equator and farther away from it, with spectral signatures of precession and obliquity variations that shift with latitude. It also provides explanations for the observed different phasings of rainfall minima and maxima near the equator and away from it. For example, the model reproduces a phase shift of ~10 ka between rainfall records from caves in northern Borneo (4°N) and from China (approximately 30°N). Finally, the model suggests that such phase shifts arise through a different weighting of ITCZ shifts and variations in rainfall intensity, thus providing insight into the mechanisms that drive tropical rainfall changes on orbital time scales.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2018

Blazing Signature Filter: a library for fast pairwise similarity comparisons

Identifying similarities between datasets is a fundamental task in data mining and has become an integral part of modern scientific investigation. Whether the task is to identify co-expressed genes in large-scale expression surveys or to predict combinations of gene knockouts which would elicit a similar phenotype, the underlying computational task is often a multi-dimensional similarity test. As datasets continue to grow, improvements to the efficiency, sensitivity or specificity of such computation will have broad impacts as it allows scientists to more completely explore the wealth of scientific data. A significant practical drawback of large-scale data mining is the vast majority of pairwise comparisons are unlikely to be relevant, meaning that they do not share a signature of interest. It is therefore essential to efficiently identify these unproductive comparisons as rapidly as possible and exclude them from more time-intensive similarity calculations. The Blazing Signature Filter (BSF) is a highly efficient pairwise similarity algorithm which enables extensive data mining within a reasonable amount of time. The algorithm transforms datasets into binary metrics, allowing it to utilize the computationally efficient bit operators and provide a coarse measure of similarity. As a result, the BSF can scale to high dimensionality and rapidly filter unproductive pairwise comparison. Furthermore, two bioinformatics applications of the tool are presented to demonstrate the ability to scale to billions of pairwise comparisons and the usefulness of this approach.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

LLNL FY22 Aging and Lifetimes Exit Criteria: Milestone 8119, GC#01

Polysiloxane foams utilized for stockpile applications experience changes over time induced by exposure to thermal, radiative, and mechanical stresses. The interplay of these stresses can lead to chemical and/or physical changes in the polymer, such as compression set and material degradation over time. Understanding the mechanisms of material aging and identifying material degradation prior to failure are critical in maintaining the integrity of the nuclear stockpile. Our prior work using solid-state NMR spectroscopy has shown that we can observe signatures of thermal, radiative, and mechanical aging of silicone elastomers using differences in NMR parameters such as relaxation (T1 and T2). However, most of our measurements have been on bulk samples and have only provided an average aging behavior of each sample. Here, we have used magnetic resonance imaging (MRI) to provide relaxation-weighted images that are a metric of structural heterogeneity (crosslink density) in polymers across multiple length scales. In addition, the larger sample size that can be accommodated in animal MRI scanners has the potential to make the technique adaptable to detecting heterogeneities in whole parts.

36 MATERIALS SCIENCE↗

DOE OSTI2023

Biological particles and aerosol-cloud interactions in the Southern Great Plains (Final Report)

The United States Southern Great Plains (SGP) is the genesis for much of the warm season precipitation in the central and eastern United States. While atmospheric thermodynamics and large-scale dynamics play an important role in formation of precipitation, precipitation mechanisms are also sensitive to aerosols. Aerosols can suppress precipitation as cloud condensation nuclei (CCN) or act as ice nucleating particles (INP) in deep convective clouds. This project focused on understanding the role of primary biological aerosol particles (PBAP) in the region and its influence on cloud formation. Specifically, we focused on biological aerosol in the form of pollen, one type of PBAP that is emitted in large yet variable quantities from vegetation in the mid latitudes. Field observations provide evidence of pollen in the planetary boundary layer and pollen components in cloud droplets and fine particulate matter. Further, pollen grains can easily rupture when wet, forming smaller, sub pollen particles with sizes less than one micron. We evaluated the potential for PBAP events at the Department of Energy (DoE) SGP Atmospheric Radiation Measurement (ARM) research facility due to the rich dataset available. We also developed model simulations that accounted for pollen emission and the generation of sub pollen particles, which have been shown to be both cloud condensation nuclei and ice nucleating particles. The proposed work was designed to address the following questions: 1. What are the physical and chemical signatures of biological aerosol such as pollen in SGP ARM measurements? 2. What is the role of pollen-derived particles on deep convection and precipitation in the Central US? Using measurements from the DoE SGP ARM site and recent airborne campaigns, we evaluated the signatures of pollen and pollen-derived aerosols on optical properties, cloud properties and precipitation (Subba et al., 2021). We identified pollen-driven events over the data record and used the Weather Research and Forecasting Model with fully coupled chemistry (WRF-Chem) to conduct chemically realistic simulations of aerosols during and summer mesoscale convective events in the Southern Great Plains (Subba et al., in review). This work improved our understanding of the role of biological aerosol on clouds and precipitation in the Central United States and placed these results in context with anthropogenically-driven processes.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Biological particles and aerosol-cloud interactions in the Southern Great Plains

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Methane, ethane, and propane production in Greenland ice core samples and a first isotopic characterization of excess methane

Air trapped in polar ice provides unique records of the past atmospheric composition ranging from key greenhouse gases such as methane (CH 4 ) to short-lived trace gases like ethane (C 2 H 6 ) and propane (C 3 H 8 ). Recently, the comparison of CH 4 records obtained using different extraction methods revealed disagreements in the CH 4 concentration for the last glacial in Greenland ice. Elevated methane levels were detected in dust-rich ice core sections measured discretely, pointing to a process sensitive to the melt extraction technique. To shed light on the underlying mechanism, we performed targeted experiments and analyzed samples for methane and the short-chain alkanes ethane and propane covering the time interval from 12 to 42 kyr. Here, we report our findings of these elevated alkane concentrations, which scale linearly with the amount of mineral dust within the ice samples. The alkane production happens during the melt extraction step of the classic wet-extraction technique and reaches 14 to 91 ppb of CH 4 excess in dusty ice samples. We document for the first time a co-production of excess methane, ethane, and propane, with the observed concentrations for ethane and propane exceeding their past atmospheric background at least by a factor of 10. Independent of the produced amounts, excess alkanes were produced in a fixed molar ratio of approximately 14 : 2 : 1, indicating a shared origin. The measured carbon isotopic signature of excess methane is (-47.0 ± 2.9) ‰ and its deuterium isotopic signature is (-326 ± 57) ‰. With the co-production ratios of excess alkanes and the isotopic composition of excess methane we established a fingerprint that allows us to constrain potential formation processes. This fingerprint is not in line with a microbial origin. Moreover, an adsorption–desorption process of thermogenic gas on dust particles transported to Greenland does not appear very likely. Instead, the alkane pattern appears to be indicative of abiotic decomposition of organic matter as found in soils and plant leaves.

54 ENVIRONMENTAL SCIENCES↗