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At least 217 records · Page 12

Structures of honeybee-infecting Lake Sinai virus reveal domain functions and capsid assembly with dynamic motions

Understanding the structural diversity of honeybee-infecting viruses is critical to maintain pollinator health and manage the spread of diseases in ecology and agriculture. We determine cryo-EM structures of $T$ = 4 and $T$ = 3 capsids of virus-like particles (VLPs) of Lake Sinai virus (LSV) 2 and delta-N48 LSV1, belonging to tetraviruses, at resolutions of 2.3–2.6 Å in various pH environments. Structural analysis shows that the LSV2 capsid protein (CP) structural features, particularly the protruding domain and C-arm, differ from those of other tetraviruses. The anchor loop on the central β-barrel domain interacts with the neighboring subunit to stabilize homo-trimeric capsomeres during assembly. Delta-N48 LSV1 CP interacts with ssRNA via the rigid helix α1’, α1’–α1 loop, β-barrel domain, and C-arm. Cryo-EM reconstructions, combined with X-ray crystallographic and small-angle scattering analyses, indicate that pH affects capsid conformations by regulating reversible dynamic particle motions and sizes of LSV2 VLPs. C-arms exist in all LSV2 and delta-N48 LSV1 VLPs across varied pH conditions, indicating that autoproteolysis cleavage is not required for LSV maturation. The observed linear domino-scaffold structures of various lengths, made up of trapezoid-shape capsomeres, provide a basis for icosahedral $T$ = 4 and $T$ = 3 architecture assemblies. These findings advance understanding of honeybee-infecting viruses that can cause Colony Collapse Disorder.

59 BASIC BIOLOGICAL SCIENCES↗

In Situ TEM Tensile Testing of Bicrystals with Tailored Misorientation Angles

Grain boundaries have complex structural features that influence strength, ductility and fracture in metals and alloys. Grain boundary misorientation angle has been identified as a key parameter that controls their mechanical behavior, but the effect of misorientation angle has been challenging to isolate in polycrystalline materials. Here, we describe the use of bicrystal Au thin films made using a rapid melt growth process to study deformation at a single grain boundary. Tensile testing is performed on bicrystals with different misorientation angles using in situ TEM, as well as on a single crystalline sample. Plastic deformation is initiated through dislocation nucleation from free surfaces. Grain boundary sliding is not observed, and failure occurs away from the grain boundary through plastic collapse in all cases. The failure behavior in these nanoscale bicrystals does not appear to depend on the misorientation angle or grain boundary energy but instead has a more complex dependence on sample surface structure and dislocation activity.

36 MATERIALS SCIENCE↗

M PX 3 van der Waals magnets under pressure ( M = Mn, Ni, V, Fe, Co, Cd; X = S, Se)

van der Waals antiferromagnets with chemical formula MPX 3 (M = V, Mn, Fe, Co, Ni, Cd; X = S, Se) are superb platforms for exploring the fundamental properties of complex chalcogenides, revealing their structure-property relations and unraveling the physics of confinement. Pressure is extremely effective as an external stimulus, able to tune properties and drive new states of matter. In this review, we summarize experimental and theoretical progress to date with special emphasis on the structural, magnetic, and optical properties of the MPX 3 family of materials. Under compression, these compounds host inter-layer sliding and insulator-to-metal transitions accompanied by dramatic volume reduction and spin state collapse, piezochromism, possible polar metal and orbital Mott phases, as well as superconductivity. Some responses are already providing the basis for spintronic, magneto-optic, and thermoelectric devices. We propose that strain may drive similar functionality in these materials.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

MHD-induced beta limits in the Large Helical Device

Using the extended-magnetohydrodynamics code, M3D-C1, we perform a systematic numerical study of the effect of externally applied heating on the achievable plasma beta in a ten field-period heliotron. Heat sources of varying intensity are applied to a vacuum magnetic field that is representative of the standard configuration of the Large Helical Device, with R 0 = 3.66 m, where R 0 is the radial position of the magnetic axis in vacuum. As the system is driven to a state that is unstable to low-n magnetohydrodynamic (MHD) modes, nonlinear mode interactions lead to the formation of chaotic magnetic fields. With sufficiently strong heating, a collapse of the electron temperature profile is observed. This demonstrates the necessity of simulating the self-consistent evolution of plasma profiles, without imposing assumptions on the structure of the magnetic field, to accurately determine transport properties in stellarator plasmas. It also highlights the value of these advanced simulation capabilities for accelerating the development of high-performance stellarator operating scenarios.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

New method for detecting fast neutrino flavor conversions in core-collapse supernova models with two-moment neutrino transport

Fast-pairwise neutrino oscillations potentially affect many aspects of core-collapse supernovae (CCSNe): the explosion mechanism, neutrino signals, and nucleosynthesis in the ejecta. This particular mode of collective neutrino oscillations has a deep connection to the angular structure of neutrinos in momentum space; for instance, the appearance of electron-neutrino lepton number (ELN) angular crossings in momentum space is a good indicator of the occurrence of flavor conversions. However, many multidimensional CCSN simulations are carried out with approximate neutrino transport (such as two-moment methods), which limits access to the angular distributions of neutrinos, i.e., inhibits ELNcrossing searches. In this paper, we develop a new method of searching for ELN crossing in these CCSN simulations. The required data is the zeroth and first angular moments of neutrinos and the matter profile, all of which are available in CCSN models with the two-moment method. One of the novelties of our new method is the use of a ray-tracing neutrino transport to determine ELNs in the direction of the stellar center. It is designed to compensate for shortcomings of the crossing searches with only two angular moments. We assess the capability of the method by carrying out a detailed comparison with results of full Boltzmann neutrino transport in 1D and 2D CCSN models. In this work, we find that the ray-tracing neutrino transport improves the accuracy of crossing searches; indeed, the appearance/disappearance of the crossings is accurately detected even in the region of forward-peaked angular distributions. The new method is computationally cheap and has the benefit of efficient parallelization; hence, it will be useful for ELN-crossing searches in any CCSN models that employ two-moment neutrino transport.

79 ASTRONOMY AND ASTROPHYSICS↗

A Computational Workflow of Elucidating Viral Impact on Mediating Microbial Response to In-situ Experimental Warming: Bridging microbial modeling to carbon and mineral modeling

Viruses are abundant in soils and shape microbial communities in ways that can potentially influence ecosystem processes, yet their contributions to carbon cycling and mineral transformations remain poorly understood. Here we present a multi-phase framework that links virus-host interactions to soil biogeochemistry by combining ecological simulations, genome- and community-scale metabolic modeling, and statistical and machine-learning analyses. We first calibrated microbial abundance profiles under explicit infection scenarios to capture how viral pressure alters community structure, then explored alternative interaction strategies, including kill-the-winner, piggyback-the-winner, and mixed lytic-lysogenic modes, through forward simulations. These ecological shifts were translated into metabolic consequences using exchange fluxes summarized into biologically meaningful categories, while integrated statistical and machine-learning screens elevated subtle but consistent signals. Application of this framework revealed that viral infections shift the balance between organic and inorganic fluxes, redirecting metabolism from diffuse organic transformations toward inorganic pools such as protons and CO 2 , directly linking viral regulation to respiration and soil carbon balance. The roll-up analysis also isolated perturbations in critical mineral ions, including magnesium, manganese, zinc, and copper, which serve as essential enzymatic cofactors. In piggyback-the-winner scenarios, uptake of these ions was strongly suppressed. Contrasting viral strategies produced distinct community structures and metabolic outcomes, from broad suppression under kill-the-winner dynamics to dramatic redistributions under high-lytic and high-gain lysogenic regimes that collapsed vulnerable microbial populations while promoting opportunists. Together, these results provide a tractable path to trace viral perturbations from host abundance shifts to metabolic flux adjustments and ecosystem-scale processes, offering a practical way to include viruses in earth system models.

54 ENVIRONMENTAL SCIENCES↗

Uniaxial compression of [001]-oriented CaFe 2 As 2 single crystals:the effects of microstructure and temperature on superelasticity Part I: Experimental observations

Micropillar compression experiments on [001]-oriented CaFe 2 As 2 single crystals have recently revealed the existence of superelasticity with a remarkably high elastic limit of over 10%. The collapsed tetragonal phase transition, which is a uni-axial contraction process in which As-As bonds are formed across an intervening Ca-plane, is the main mechanism of superelasticity. Usually, superelasticity and the related structural transitions are affected strongly by both the microstructure and the temperature. As such, in this study, we investigated how the microstructure and temperature affect the superelasticity of [001]-oriented CaFe 2 As 2 micropillars cut from solution-grown single crystals, by performing a combination of in-situ cryogenic micromechanical testing and transmission electron microscopy studies. Our results show that the microstructure of CaFe 2 As 2 is influenced strongly by the crystal growth conditions and by subsequent heat treatment. The presence of Ca and As vacancies and FeAs nanoprecipitates affect the mechanical behavior significantly. In addition, the onset stress for the collapsed tetragonal transition decreases gradually as the temperature decreases. These experimental results are discussed primarily in terms of the formation of As-As bonds, which is the essential feature of this mechanism for superelasticity. Our research outcomes provide a more fundamental understanding of the superelasticity exhibited by CaFe 2 As 2 under uni-axial compression.

36 MATERIALS SCIENCE↗

Constructing angular distributions of neutrinos in core-collapse supernovae from zeroth and first moments calibrated by full Boltzmann neutrino transport

Two-moment neutrino transport methods have been widely used for developing theoretical models of core-collapse supernovae (CCSN), since they substantially reduce the computational burden inherent in the multidimensional neutrino-radiation hydrodynamical simulations. The approximation, however, comes at a price; the detailed structure of angular distribution of neutrinos is sacrificed, that is the main drawback of this approach. In this paper, we develop a novel method by which to construct angular distributions of neutrinos from the zeroth and first angular moments. In our method, the angular distribution is expressed with two quadratic functions of the neutrino angle in a piecewise fashion. We determine the best parameters in the fitting function by comparing to the neutrino data in a spherically symmetric CCSN model with full Boltzmann neutrino transport. We demonstrate the capability of our method by using our recent 2D CCSN model. In this work, we find that the essential features of the angular distributions can be well reconstructed, whereas the angular distributions of incoming neutrinos tend to have large errors that increase with flux factor ($\textit{κ}$). This issue originates from the insensitiveness of incoming neutrinos to $\textit{κ}$, that is an intrinsic limitation in moment methods. Based on the results of the demonstration, we assess the reliability of electron- neutrinos lepton number (ELN)-crossing searches with the two-moment neutrino transport. This analysis is complementary to our [L. Johns and H. Nagakura arXiv:2104.04106] that scrutinizes the limitation of crossing searches with a few moments. We find that the systematic errors of angular distributions for incoming neutrinos lead to misjudgements of the crossing at $\textit{κ}$ ≳ 0.5. This casts doubt on the results of ELN-crossing searches based on two-moment methods in some previous studies.

79 ASTRONOMY AND ASTROPHYSICS↗

Shear Behavior of Artificial Clay Seams within Bedded Salt Structures

Bedded salt contains thin layers of clay, also known as clay seams, in-between far thicker layers of salt. These inhomogeneities are thought to have first-order effects on the closure of nearby drifts and potential roof collapses. Despite their importance, characterizations of the peak shear strength and residual shear strength of clay seams in salt are extremely rare in the published literature. A previous paper reported results from laboratory direct shear experiments on clay seam samples from the Permian Basin in New Mexico. These clay seams behaved similar to intact salt, which was attributed to the abundance of salt crystals intersecting the clay seams. None of those specimens contained a distinct ¼" - ½" (6 -12 mm) thick clay seam, as has been observed in drifts at the Waste Isolation Pilot Plant (WIPP). Due to the difficulty in obtaining WIPP samples with these types of clay seams, artificial seams of bentonite and brine sandwiched between sections of salt were created and shear tested. Eight 4" diameter samples were created with either a ¼" or ½" a thick seam and then consolidated at 3000 psi prior to shear testing. The direct shear tests on these samples were performed at nominal normal stresses representative of expected WIPP in-situ conditions (500 to 1500 psi). The resulting shear stress vs. shear displacement curves exhibited a peak followed by a gradual decay of shear strength. The shear stress never transitioned to a true residual shear stress plateau, so the final shear strength at the end of each test (0.75" of shear displacement) was analyzed instead. Both the peak shear strength and the final shear strength conformed to Mohr- Coulomb behavior with friction angles and cohesion strengths consistent with a saturated, highly consolidated, clay. These new artificial clay seam results and the previous clay-interspersed-with-salt results likely bound the expected shear behavior of WIPP clay seams.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

TCF - Sustainable Well Cement for Geothermal, Thermal Recovery, and Carbon Storage wells

Primary cementing is the most important operation performed on a subterranean well. Cement, placed in the annulus between the casing and the formations, serves as a hydraulic seal preventing fluids and gas migrations, protecting steel casing from corrosion, and supporting the well structure. Poor cementing jobs can be directly responsible for wells not reaching their full capacity, casing corrosion, compromised well integrity and, in the worst-case scenarios, well collapse. Geothermal, thermal recovery, and carbon storage wells offer environments that are especially difficult for cements to survive while the required lifespan of these wells can be years. In these wells currently used cements cannot provide durable well integrity, and new solutions are necessary. The necessity of stabilizing the electric grid, increasing its flexibility, and providing energy on demand will further expand the market of durable cement solutions for applications in high-temperature underground reservoir thermal energy storage wells (HT RTES). The design challenges of special cement systems for such wells originate from chemistry limitations of currently used well cements, aggressive environments, temperature and repeated shock conditions associated with them, and very weak formations that are not uncommon in these wells. During the last 70 years the most common systems for thermal-well construction have been Ordinary Portland Cement (OPC) (absolute majority of the wells), silica-lime system, and high aluminum cement-containing formulations. The major issues of calcium-silicate hydrates, that form during the hydration of OPC resulting in hardened material, are their poor chemical resistance to acids due to the calcium interactions with acid anions followed by its eventual dissolution, even in mild acids, such as carbonic acid from CO 2 dissolution, and inadequate bonding to the steel causing serious casing corrosion problems (Sugama & Pyatina, 2019). Performance of OPC-based cement may be significantly improved with organic additives; however, those are limited by their temperature stability. An alternative to calcium-silicate cement was developed by BNL and commercialized by Halliburton as ThermaLock TM cement. Calcium-aluminate-phosphate-based chemistry of the material allowed overcoming acid-resistance problems of OPC, especially in CO 2 -rich geothermal environments. In 2012-2015, building upon this experience, BNL developed Thermal Shock Resistant Cement (TSRC) with the support of Geothermal Technology Office (GTO) of DOE. TSRC has high-temperature stable chemistry, superior properties of cement-metal casing bond and corrosion protection (4-times better than currently used OPC-based formulation), significantly outperforms common well-cements in thermal-shock tests, has self-healing properties, and like ThermaLock TM is CO 2 resistant incorporating carbonate ions into stable hydrates (Gill et al., 2012).

15 GEOTHERMAL ENERGY↗

Cements and a Modeling Tool to Calculate their Viability under Various Exploitation Conditions of HT RTES Systems

Primary cementing is the most important operation performed on a subterranean reservoir. Cement, placed in the annulus between the casing and the formations serves as a hydraulic seal preventing fluids and gas migrations, protecting steel casing from corrosion and supporting the well structure. Poor cementing jobs can be directly responsible for wells not reaching their full capacity, casing corrosion, compromised well integrity and, in the worst-case scenarios, well collapse.

15 GEOTHERMAL ENERGY↗

Unidirectional amplification in the frozen mode regime enabled by a nonlinear defect

A stationary inflection point (SIP) is a spectral singularity of the Bloch dispersion relation ω(k) of a periodic structure where the first and the second derivatives of ω with respect to k vanish. An SIP is associated with a third-order exceptional point degeneracy in the spectrum of the unit-cell transfer matrix, where there is a collapse of one propagating and two evanescent Bloch modes. At the SIP frequency, the incident wave can be efficiently converted into the frozen mode with greatly enhanced amplitude and vanishing group velocity. This can be very attractive for applications, including light amplification. Due to its non-resonant nature, the frozen mode regime (FMR) has fundamental advantages over common cavity resonances. Furthermore, we propose, a novel, to the best of our knowledge, scheme for FMR-based unidirectional amplifiers by leveraging a tailored amplification/attenuation mechanism and a single nonlinear defect. The defect breaks the directional symmetry of the periodic structure and enables nonlinearity-related unidirectional amplification/attenuation in the vicinity of the SIP frequency. We demonstrate the robustness of the amplification mechanism to local impurities and parasitic nonlinearity.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Rheo–Electric Foundations and Engineering of Carbon Slurry Flow Electrodes

Flowable carbon slurry electrodes promise continuous, scalable electrochemical desalination and energy storage when their rheology (flow and stability) and electronic connectivity are jointly optimized. This report integrates six complementary thrusts that we executed under the Laboratory Directed Research and Development (LDRD) project: (i) a fast, ex situ, centrifuge-compatible method to quantify pellet (packed slurry) electronic conductivity, with a validated cell constant (“shape factor”) and quantitative structure–property insights for carbon mixtures; (ii) a controlled circulation study showing that peristaltic pumping can irreversibly alter particle size and morphology over laboratory-relevant durations; (iii) development of a miniature jet pump that preserves particle integrity while achieving entrainment ratios of 2–4 at practical flow rates; (iv) a comprehensive mapping of how a representative non-ionic surfactant (Tween 20) collapses the carbon gel network, separating network-percolation losses from intrinsic particle contact resistance; (v) in-situ visualization revealing how gravitational settling and flow-driven mixing compete to control charge transport, with dynamic bed layers preventing saturation while achieving 30-fold local concentration enhancement; and (vi) a simple, widely adoptable fabrication route to structured, gas-nitrided titanium nitride (TiN) titanium current collectors that dramatically lower interfacial losses and enable geometry-driven performance gains. Together, these results provide a coherent toolchain and design rules to accelerate formulation screening, de-risk device prototyping, and standardize characterization for carbon slurry electrodes in flow-electrode capacitive deionization (FCDI), electrochemical flow capacitor (EFC), and related systems.

25 ENERGY STORAGE↗

Uniform momentum and temperature zones in unstably stratified turbulent flows

Wall-bounded turbulent flows exhibit a zonal arrangement, in which streamwise velocity organizes into uniform momentum zones (UMZs), separated by thin layers of elevated interfacial shear. While significant research efforts have focused on these structural features in neutrally stratified flows, the effects of unstable thermal stratification on UMZs and on analogous uniform temperature zones (UTZs) have not been considered previously. In this article, statistical properties of UMZs and UTZs are investigated using a suite of large eddy simulations of unstably stratified turbulent channel flow spanning weakly to highly convective conditions. When normalized by the friction velocity and stability-dependent mixing length, the mean velocity gradient based on UMZ interfacial velocity jumps and the vorticity thickness exhibits good collapse for all stabilities, establishing a link between UMZ properties and scaling predictions from Monin–Obukhov similarity theory. A similar relationship is found between UTZ properties and surface-layer scaling of the mean temperature gradient. In the mixed layer, mean UMZ depth is quasi-constant with wall-normal distance, while the deepest UTZs are found in the centre of the boundary layer. These instantaneous structures are found to be linked to the well-mixed velocity and temperature profiles in the convective mixed layer. Conditional averaging indicates that both UMZ and UTZ interfaces are associated with ejections of momentum and warm updrafts below the interface and sweeps of momentum and cool downdrafts above the interface. These results demonstrate a tangible connection between instantaneous structural features, mean properties and scaling laws in unstably stratified flows.

Mechanics↗

Crystal structure, compressibility, and thermal expansion of uranium mononitride

The behavior of the uranium mononitride (UN) crystal structure at nonambient conditions is disputed, with studies proposing various mutually exclusive distortions and transformations of the conventional face-centered-cubic structure at extreme temperatures and pressures. Here, in this study, we investigated the UN lattice with diamond anvil cell x-ray diffraction experiments at pressures up to 92 GPa and with density functional theory calculations at temperatures up to 1000 K and pressures up to 90 GPa. We determined that while the UN structure is nearly cubic at ambient conditions, its lattice angle (𝛼) varies as a function of pressure and temperature, meaning its structure can be more precisely described as face-centered-rhombohedral with 𝛼 ≈ 90∘. Over the range of conditions we investigated, UN exhibits a single, isostructural phase transition at ≈ 35 GPa, where 𝛼 collapses to ≈ 86°. Measurements and calculations agree that the compressibility of UN increases significantly beyond this transition, with the bulk modulus falling from ≈ 200 GPa in the low-pressure phase to 121 ± 3 GPa (according to calculations) or 58 ± 4 GPa (according to measurements) in the high-pressure phase. Our measurements also allowed us to constrain the bulk modulus of 𝛼−U 2 ⁢N 3 to 240 ± 10 GPa.

36 MATERIALS SCIENCE↗

ASCENT: a balloon-borne hard x-ray imaging spectroscopy telescope using transition edge sensor microcalorimeter detectors

Core collapse supernovae are thought to be one of the main sources in the galaxy of elements heavier than iron. Understanding the origin of the elements is thus tightly linked to our understanding of the explosion mechanism of supernovae and supernova nucleosynthesis. X-ray and gamma-ray observations of young supernova remnants, combined with improved theoretical modeling, have resulted in enormous improvements in our knowledge of these events. Here, the isotope Ti44 is one of the most sensitive probes of the innermost regions of the core collapse engine, and its spatial and velocity distribution are key observables. Hard x-ray imaging spectroscopy with the Nuclear Spectroscopic Telescope Array (NuSTAR) has provided new insights into the structure of the supernova remnant Cassiopeia A (Cas A), establishing the convective nature of the supernova engine. However, many questions about the details of this engine remain. We present here the concept for a balloon-borne follow-up mission called A SuperConducting ENergetic x-ray Telescope (ASCENT). ASCENT uses transition edge sensor gamma-ray microcalorimeter detectors with a demonstrated 55-eV full-width half maximum energy resolution at 97 keV. This 8- to 16-fold improvement in energy resolution over NuSTAR will allow for high-resolution imaging and spectroscopy of the Ti44 emission. This will allow for a detailed reconstruction of gamma-ray line redshifts, widths, and shapes, allowing us to address questions such as, What is the source of the neutron star kicks? What is the dominant production pathway for Ti44? Is the engine of Cas A unique?

79 ASTRONOMY AND ASTROPHYSICS↗

How extreme rainfall and failing dams unleashed the Derna flood disaster

On September 11, 2023, Storm Daniel unleashed unprecedented rainfall over the Wadi Derna watershed, triggering one of the most devastating floods in modern history, striking Derna, a coastal city in Libya. This study reconstructs the disaster using an integrated modeling approach that combines satellite imagery, hydrologic, hydraulic, and geotechnical simulations, machine learning, eyewitness accounts, and digital elevation data to assess the impact of cascading dam failures. Our findings reveal that the region’s dams, even if structurally sound, would have provided minimal protection against the extreme runoff. However, their failure unleashed a destructive surge wave, amplifying the disaster’s magnitude and devastation. Here, we show that the collapse of aging flood control infrastructures, compounded by inadequate risk assessment and emergency preparedness, dramatically escalated the disaster’s impact. Our findings underscore the urgent need for systematic dam safety evaluations, enhanced flood forecasting, and adaptive risk management strategies that address climate extremes and infrastructure vulnerabilities.

Hydrology↗