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At least 109 records · Page 6

Biogenic-to-lithogenic handoff of particulate Zn affects the Zn cycle in the Southern Ocean

Zinc (Zn) is vital to marine organisms. Its active uptake by phytoplankton results in a substantial depletion of dissolved Zn, and Zn bound to particulate organic matter replenishes dissolved Zn in the ocean through remineralization. However, we found that particulate Zn changes from Zn bound to phosphoryls in cells to recalcitrant inorganic pools that include biogenic silica, clays, and iron, manganese, and aluminum oxides in the Southern Ocean water column. The abundances of inorganic pools increase with depth and are the only phases preserved in sediments. Changes in the particulate-Zn speciation influence Zn bioavailability and explain the decoupling of Zn and phosphorus and the correlation of Zn and silicon in the water column. Here, these findings reveal a new dimension to the ocean Zn cycle, implicating an underappreciated role of inorganic Zn particles and their impact on biological productivity.

Duan, J.↗

Subcell limiting strategies for discontinuous Galerkin spectral element methods

Here, we present a general family of subcell limiting strategies to construct robust high-order accurate nodal discontinuous Galerkin (DG) schemes. The main strategy is to construct compatible low order finite volume (FV) type discretizations that allow for convex blending with the high-order variant with the goal of guaranteeing additional properties, such as bounds on physical quantities and/or guaranteed entropy dissipation. For an implementation of this main strategy, four main ingredients are identified that may be combined in a flexible manner: (i) a nodal high-order DG method on Legendre–Gauss–Lobatto nodes, (ii) a compatible robust subcell FV scheme, (iii) a convex combination strategy for the two schemes, which can be element-wise or subcell-wise, and (iv) a strategy to compute the convex blending factors, which can be either based on heuristic troubled-cell indicators, or using ideas from flux-corrected transport methods. By carefully designing the metric terms of the subcell FV method, the resulting methods can be used on unstructured curvilinear meshes, are locally conservative, can handle strong shocks efficiently while directly guaranteeing physical bounds on quantities such as density, pressure or entropy. We further show that it is possible to choose the four ingredients to recover existing methods such as a provably entropy dissipative subcell shock-capturing approach or a sparse invariant domain preserving approach. We test the versatility of the presented strategies and mix and match the four ingredients to solve challenging simulation setups, such as the KPP problem (a hyperbolic conservation law with non-convex flux function), turbulent and hypersonic Euler simulations, and MHD problems featuring shocks and turbulence.

97 MATHEMATICS AND COMPUTING↗

Dissipative ground state preparation in ab initio electronic structure theory

Dissipative engineering is a powerful tool for quantum state preparation, and has drawn significant attention in quantum algorithms and quantum many-body physics in recent years. In this work, we introduce a novel approach using the Lindblad dynamics to efficiently prepare the ground state for general ab initio electronic structure problems on quantum computers, without variational parameters. These problems often involve Hamiltonians that lack geometric locality or sparsity structures, which we address by proposing two generic types of jump operators for the Lindblad dynamics. Type-I jump operators break the particle number symmetry and should be simulated in the Fock space. Type-II jump operators preserves the particle number symmetry and can be simulated more efficiently in the full configuration interaction space. For both types of jump operators, we prove that in a simplified Hartree-Fock framework, the spectral gap of our Lindbladian is lower bounded by a universal constant. For physical observables such as energy and reduced density matrices, the convergence rate of our Lindblad dynamics with Type-I jump operators remains universal, while the convergence rate with Type-II jump operators only depends on coarse grained information such as the number of orbitals and the number of electrons. To validate our approach, we employ a Monte Carlo trajectory-based algorithm for simulating the Lindblad dynamics for full ab initio Hamiltonians, demonstrating its effectiveness on molecular systems amenable to exact wavefunction treatment.

Quantum chemistry↗

Interstellar and Solar System Organic Matter Preserved in Interplanetary Dust

Interplanetary dust particles (IDPs) collected in the Earth's stratosphere derive from collisions among asteroids and by the disruption and outgassing of short‐period comets. Chondritic porous (CP) IDPs are among the most primitive Solar System materials. CP‐IDPs have been linked to cometary parent bodies by their mineralogy, textures, C‐content, and dynamical histories. CP‐IDPs are fragile, fine‐grained (less than um) assemblages of anhydrous amorphous and crystalline silicates, oxides and sulfides bound together by abundant carbonaceous material. Ancient silicate, oxide, and SiC stardust grains exhibiting highly anomalous isotopic compositions are abundant in CP‐IDPs, constituting 0.01 - 1 % of the mass of the particles. The organic matter in CP‐IDPs is isotopically anomalous, with enrichments in D/H reaching 50x the terrestrial SMOW value and 15N/14N ratios up to 3x terrestrial standard compositions. These anomalies are indicative of low T (10‐100 K) mass fractionation in cold molecular cloud or the outermost reaches of the protosolar disk. The organic matter shows distinct morphologies, including sub‐um globules, bubbly textures, featureless, and with mineral inclusions. Infrared spectroscopy and mass spectrometry studies of organic matter in IDPs reveals diverse species including aliphatic and aromatic compounds. The organic matter with the highest isotopic anomalies appears to be richer in aliphatic compounds. These materials also bear similarities and differences with primitive, isotopically anomalous organic matter in carbonaceous chondrite meteorites. The diversity of the organic chemistry, morphology, and isotopic properties in IDPs and meteorites reflects variable preservation of interstellar/primordial components and Solar System processing. One unifying feature is the presence of sub‐um isotopically anomalous organic globules among all primitive materials, including IDPs, meteorites, and comet Wild‐2 samples returned by the Stardust mission.

Messenger, Scott↗

Spatiotemporally Adaptive Compression for Scientific Dataset with Feature Preservation – A Case Study on Simulation Data with Extreme Climate Events Analysis

Scientific discoveries are increasingly constrained by limited storage space and I/O capacities. For time-series simulations and experiments, their data often need to be decimated over timesteps to accommodate storage and I/O limitations. In this paper, we propose a technique that addresses storage costs while improving post-analysis accuracy through spatiotemporal adaptive, error-controlled lossy compression. We investigate the trade-off between data precision and temporal output rates, revealing that reducing data precision and increasing timestep frequency lead to more accurate analysis outcomes. Additionally, we integrate spatiotemporal feature detection with data compression and demonstrate that performing adaptive error-bounded compression in higher dimensional space enables greater compression ratios, leveraging the error propagation theory of a transformation-based compressor. To evaluate our approach, we conduct experiments using the well-known E3SM climate simulation code and apply our method to compress variables used for cyclone tracking. Our results show a significant reduction in storage size while enhancing the quality of cyclone tracking analysis, both quantitatively and qualitatively, in comparison to the prevalent timestep decimation approach. Compared to three state-of-the-art lossy compressors lacking feature preservation capabilities, our adaptive compression framework improves perfectly matched cases in TC tracking by 26.4-51.3% at medium compression ratios and by 77.3-571.1% at large compression ratios, with a merely 5–11% computational overhead.

Gong, Qian↗

Eureka: Enabling Fine-Grained Access and Range Queries on Compressed Scientific Data via Data-Index Co-Compression

Handling large-scale scientific data in high-performance computing (HPC) environments poses significant challenges, including excessive I/O, high storage costs, and slow query performance. Traditional approaches often require full data decompression and scans, making them impractical for real-time or interactive analysis. To address these limitations, we introduce Eureka, a unified data-index co-compression framework that enables fine-grained access and efficient range queries on compressed scientific datasets. Eureka integrates spatial domain decomposition with block-wise error-bounded lossy compression to support selective decompression. It constructs a hierarchical AVL-tree index during compression to capture block-level value ranges, enabling fast pruning during query execution. To reduce metadata overhead, the index itself is also compressed while ensuring recall-preserving results. Experiments on six diverse HPC simulation datasets show that Eureka achieves up to 25x data compression and over 300x index compression, surpassing state-of-the-art compressors such as SZ3 and ZFP in rate-distortion performance. Additionally, Eureka delivers over 30x speedup for low-selectivity range queries, making it a scalable and efficient solution for modern scientific data analysis.

Yan, Ning↗

Model order reduction applied to a hot-bench simulation of an aeroelastic wind-tunnel model

Simulations of an aeroelastically scaled wind-tunnel model were developed for hot-bench testing of a digital controller. The digital controller provided active flutter-suppression, rolling-maneuver-load alleviation, and plant estimation. To achieve an acceptable time scale for the hot-bench application, the mathematical model of the wind-tunnel model was reduced from 220 states to approximately 130 states while assuring that the required accuracy was preserved for all combinations of 10 inputs and 56 outputs. The reduction was achieved by focussing on a linear, aeroelastic submodel of the full mathematical model and by applying a method based on the internally balanced realization of a dynamic system. The error-bound properties of the internally balanced realization significantly contribute to its utility in the model reduction process. The reduction method and the results achieved are described.

Buttrill, Carey S.↗

Color visualization for fluid flow prediction

High-resolution raster scan color graphics allow variables to be presented as a continuum, in a color-coded picture that is referenced to a geometry such as a flow field grid or a boundary surface. Software is used to map a scalar variable such as pressure or temperature, defined on a two-dimensional slice of a flow field. The geometric shape is preserved in the resulting picture, and the relative magnitude of the variable is color-coded onto the geometric shape. The primary numerical process for color coding is an efficient search along a raster scan line to locate the quadrilteral block in the grid that bounds each pixel on the line. Tension spline interpolation is performed relative to the grid for specific values of the scalar variable, which is then color coded. When all pixels for the field of view are color-defined, a picture is played back from a memory device onto a television screen.

Smith, R. E.↗

Integrated approaches to terminal Proterozoic stratigraphy: an example from the Olenek Uplift, northeastern Siberia

In the Olenek Uplift of northeastern Siberia, the Khorbusuonka Group and overlying Kessyusa and Erkeket formations preserve a significant record of terminal Proterozoic and basal Cambrian Earth history. A composite section more than 350 m thick is reconstructed from numerous exposures along the Khorbusuonka River. The Khorbusuonka Group comprises three principal sedimentary sequences: peritidal dolomites of the Mastakh Formation, which are bounded above and below by red beds; the Khatyspyt and most of the overlying Turkut formations, which shallow upward from relatively deep-water carbonaceous micrites to cross-bedded dolomitic grainstones and stromatolites; and a thin upper Turkut sequence bounded by karst surfaces. The overlying Kessyusa Formation is bounded above and below by erosional surfaces and contains additional parasequence boundaries internally. Ediacaran metazoans, simple trace fossils, and vendotaenids occur in the Khatyspyt Formation; small shelly fossils, more complex trace fossils, and acritarchs all appear near the base of the Kessyusa Formation and diversify upward. The carbon-isotopic composition of carbonates varies stratigraphically in a pattern comparable to that determined for other terminal Proterozoic and basal Cambrian successions. In concert, litho-, bio-, and chemostratigraphic data indicate the importance of the Khorbusuonka Group in the global correlation of terminal Proterozoic sedimentary rocks. Stratigraphic data and a recently determined radiometric date on basal Kessyusa volcanic breccias further underscore the significance of the Olenek region in investigations of the Proterozoic-cambrian boundary.

Non-NASA Center↗

Microbe-iron interactions control lignin decomposition in soil

Lignin decomposition is critically linked to terrestrial carbon (C) cycle due to the enormous C mass of lignin and its importance in controlling overall rates of litter decomposition. Interactions between lignin and iron (Fe) minerals have been increasingly recognized as key mediators of lignin decomposition in experimental studies. However, we still lack a quantitative understanding of how Fe minerals interact with microbes to control lignin decomposition. Here, we leveraged experimental results from an incubation of Fe-rich soil, in which lignin decomposition rates were measured at aerobic conditions after four levels of pre-treated O2 availability, to examine microbe-Fe (MiFe) interactions in lignin decomposition with a MiFe model. We quantified how Fe redox cycling interacted with microbial activities to control lignin decomposition via data-model integration. Our results showed that the MiFe model with time-dependent growth and mortality functions better represented CO2 release from lignin decomposition (R2 ranging from 0.96 to 0.97) than models assuming either first-order or Michaelis-Menten kinetics. Reduction of Fe(III) to Fe(II) after pre-treatments with lower O2 availability stimu-lated the Fenton reaction to break down macro-molecular lignin into small molecules available to microbes. The small molecules of lignin and necromass bounded with oxidized Fe and were protected from decomposition. After 1-year incubation, the model implied that most of C stabilized with Fe minerals was derived from small molecular lignin C. Our quantitative analysis of microbe-Fe interactions sheds new light on lignin decomposition and preservation and helps improve model prediction of soil C persistence under global change.

Liao, Cuijuan↗

Collisional history of asteroids - Evidence from Vesta and the Hirayama families

Numerical simulations of the collisional evolution of hypothetical initial asteroid populations have been run which are subject to three constraints: they must evolve to the current asteroid size distribution, preserve Vesta's basaltic crust, and produce at least the observed number of major Hirayama families. A 'runaway growth' initial asteroid population distribution is found to best satisfy these constraints, and a model is developed for the calculation of fragment size distribution in the disruption of large, gravitationally bound bodies in which the material strength is enhanced by hydrostatic self-compression. This model predicts that large asteroids behave as intrinsically strong bodies despite histories of collisional fracture.

Davis, D. R.↗

New AdS4 vacua in dyonic ISO(7) gauged supergravity

We identify 219 AdS 4 solutions in four-dimensional dyonically gauged ISO(7) N = 8 supergravity and present some of their properties. One of the new solutions preserves N = 1 supersymmetry and provides a rare explicit example of an AdS 4 vacuum dual to a 3d SCFT with no continuous global symmetry. There are also two new non-supersymmetric solutions for which all 70 scalar fields in the supergravity theory have masses above the BF bound. All of these AdS 4 solutions can be uplifted to massive type IIA supergravity. Motivated by this we present the low lying operator spectra of the dual 3d CFTs for all known supersymmetric AdS 4 solutions in the theory and organize them into superconformal multiplets.

79 ASTRONOMY AND ASTROPHYSICS↗

Integrated Radio Frequency and Ultrasonics with Conventional Processes for Efficient Water Removal in Pulp and Paper and Other Biomaterial Applications

Conventional drying processes used in the pulp and paper industry primarily involve lengthy, surface based, multi-cylinder conductive and convective drying with low thermal efficiencies and often use some fossil-based energy. Integration of cross cutting, electrically-powered, volumetric drying process intensification technologies based on Radio Frequency (RF) and acoustics (Ultrasonics) (US) will directly impart energy into the biomaterials resulting in improved energy efficiency and throughput. Integration of RFUS-based drying technology is expected to enable U.S. manufacturing industry to reduce capital and operating costs, energy consumption, and carbon emissions while increasing energy efficiency and throughput, improving product quality and sustainability, and helping preserve U.S. manufacturing jobs. The hybrid drying approach incorporates directed radio frequency (RF) and ultrasonic (US) energy with conventional conduction, diffusion and convective heat and mass transfer overcoming the limitations of the conventional drying processes and that meets/exceeds the minimum goals. We have shown the effective removal of free and bound water in the biomaterials by leveraging the synergies of RF and US technologies integrated with conventional manufacturing processes.

42 ENGINEERING↗

Performance efficient macromolecular mechanics via sub-nanometer shape based coarse graining

Dimensionality reduction via coarse grain modeling is a valuable tool in biomolecular research. For large assemblies, ultra coarse models are often knowledge-based, relying on a priori information to parameterize models thus hindering general predictive capability. Here, we present substantial advances to the shape based coarse graining (SBCG) method, which we refer to as SBCG2. SBCG2 utilizes a revitalized formulation of the topology representing network which makes high-granularity modeling possible, preserving atomistic details that maintain assembly characteristics. Further, we present a method of granularity selection based on charge density Fourier Shell Correlation and have additionally developed a refinement method to optimize, adjust and validate high-granularity models. We demonstrate our approach with the conical HIV-1 capsid and heteromultimeric cofilin-2 bound actin filaments. Our approach is available in the Visual Molecular Dynamics (VMD) software suite, and employs a CHARMM-compatible Hamiltonian that enables high-performance simulation in the GPU-resident NAMD3 molecular dynamics engine.

59 BASIC BIOLOGICAL SCIENCES↗

A microarray immunoassay for simultaneous detection of proteins and bacteria

We report the development and characterization of an antibody microarray biosensor for the rapid detection of both protein and bacterial analytes under flow conditions. Using a noncontact microarray printer, biotinylated capture antibodies were immobilized at discrete locations on the surface of an avidin-coated glass microscope slide. Preservation of capture antibody function during the deposition process was accomplished with the use of a low-salt buffer containing sucrose and bovine serum albumin. The slide was fitted with a six-channel flow module that conducted analyte-containing solutions over the array of capture antibody microspots. Detection of bound analyte was subsequently achieved using fluorescent tracer antibodies. The pattern of fluorescent complexes was interrogated using a scanning confocal microscope equipped with a 635-nm laser. This microarray system was employed to detect protein and bacterial analytes both individually and in samples containing mixtures of analytes. Assays were completed in 15 min, and detection of cholera toxin, staphylococcal enterotoxin B, ricin, and Bacillus globigii was demonstrated at levels as low as 8 ng/mL, 4 ng/mL, 10 ng/mL, and 6.2 x 10(4) cfu/mL, respectively. The assays presented here are very fast, as compared to previously published methods for measuring antibody-antigen interactions using microarrays (minutes versus hours).

Non-NASA Center↗

Fully Homomorphic Encryption

This code implements a Fully Homomorphic Encryption (FHE) system, enabling secure computation on encrypted data without requiring decryption. It supports encryption, decryption, and homomorphic operations like matrix multiplication and addition. This code is adaptable for integrating FHE into linear-time invariant (LTI) systems, including digital control and filtering. With proper configuration from subject matter expertise, encrypted system parameters and signals can be manipulated to perform tasks like state updates, output calculations, and convolution in the encrypted domain. By preserving the structure of LTI systems while ensuring privacy, the framework facilitates secure applications in areas such as autonomous systems, signal processing, and industrial automation. The code initializes the encryption system using parameters provided in the env dictionary. These parameters include the ciphertext modulus, key dimension, plaintext fixed-point scaling factor, and noise bound. During initialization, a secret key is generated, which is essential for encrypting and decrypting data securely. The modular design allows users to tailor these parameters to specific use cases or security requirements. The code implements multiple cryptographic schemes. The learning with errors (LWE) encryption method encodes cleartext message to their plaintext fixed-point representation then encrypted into ciphertext space with additive noise. This noise ensures the security of the scheme, relying on the computational hardness of the LWE problem. The code also includes the Gentry-Sahai-Waters (GSW) scheme based off the LWE problem. Homomorphic matrix multiplication is performed between the LWE and GSW to encrypted data. This is achieved using a decomposition function on the LWE ciphertext during the multiplication operation. For higher-dimensional data, the code includes a method to encrypt entire matrices (GSWMat) using GSW encryption. These encrypted matrices can then be used for homomorphic matrix multiplications (MatMult). The decryption function uses the secret key to recover the original plaintext, removing the added noise and scaling that was originally applied during encryption.

Lois, Roberts [Idaho National Laboratory (INL), Id↗

Role of coherent structures in turbulent shear flows

A definition for the large-scale coherent structure is presented, and the nature and role of coherent structures in turbulent shear flows are examined. The equations governing the coherent motions and the experimental considerations as well as constraints in the investigations of coherent structures in wall-bounded and free turbulent shear flows are discussed. Results from a few of our recent and on-going studies of coherent structures in excited and unexcited free turbulent shear flows are reviewed. These results show that coherent structures are dominant in transport in the early stages of their formation, but not in the self-preserving regions of turbulent shear flows.

Fazle Hussain, A. K. M.↗

A Unified Beam-Dynamics and Hardware Design Framework for Hybrid Nonlinear-Kicker Injection in NSLS-II

Nonlinear kickers (NLKs) enable off-axis injection in ultralow-emittance storage rings by providing a strong kick to the injected beam while remaining nearly transparent to the stored beam. In hybrid schemes, a conventional four-kicker bump defines the injected trajectory, and the NLK reduces the first-turn action under constrained beam offset and optics conditions. Effective operation additionally requires stable and reproducible first-turn injection trajectories. We develop a compact action–angle framework that expresses NLK dynamics in terms of Courant–Snyder invariants and yields an analytical bound on achievable action reduction. This formulation provides direct design rules for NLK placement, phase advance, injected-beam offset, and kicker field profile. Within this framework, we identify the 8-wire NLK as a practical baseline and extend its design by relaxing the square-geometry constraint, enabling inward shifting of the off-axis field peak while preserving on-axis field and gradient cancellation. Application to the NSLS-II lattice shows how aperture, pulsed-power, and mechanical constraints combine to determine a coupled design solution. Multi-turn tracking confirms that candidate NLK locations maintain sufficient stay-clear (aperture-clearance) margin, while the optimized wire geometry reduces the required current and Lorentz force load. The results establish a unified approach for NLK-assisted injection design and provide a practical pathway for upgrades in diffraction-limited storage rings.

36 MATERIALS SCIENCE↗