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At least 1,513 records · Page 84

EvoNet: A phylogenomic and systems biology approach to identify genes underlying plant survival in marginal, low‐N soils

The DOE‐BER “EvoNet” project investigates the genetic and molecular basis of plant resilience in extreme environments. We do this by identifying key genes that enable “extreme survivor” species to thrive in the nitrogen-poor soils of Chile’s hyper-arid Atacama Desert. Our collections focus on 32 Atacama extremophile species, including seven grass species with potential biofuel applications. To identify genes-of-importance to survival we compared genomic and transcriptomic profiles of extremophile species that thrive in the Atacama to those of closely related “sister” species from nitrogen-rich arid and mesic regions of California. Deep RNA sequencing and de novo transcriptome assembly across these triplet species sets supported a phylogenomic framework for identifying positively selected genes associated with adaptive divergence. Our integrative analysis combined ecological and environmental data, metagenomics, evolutionary and systems biology, and metabolomics. This enabled us to create an unprecedented framework for systematically understanding how non-model plants have adapted to survive in extreme conditions. Our resulting database of positively selected ortholog groups in the extremophile plants offers promising targets for engineering crop and biofuel species with enhanced resilience to drought and extreme weather. Additionally, our newest dataset explores and exploits a complementary metabolomic approach. This new aspect provides innovative strategies to manipulate plant cell metabolism, further supporting efforts to improve agricultural productivity in the face of extreme climates. Importantly, our combined evolutionary- and metabolomic-based strategies focused on convergent patterns of adaptation, providing a genetic and metabolomic toolkit for improving crop and biofuel resilience across diverse plant species. Finally, our novel exploration of ecological and evolutionary dynamics delivered to the community a phylogenomic computational pipeline called “PhyloGeneious.” Our continued adaptations of this pipeline are publicly available to expedite evolutionary genomic research for future scientific discoveries. In total, our DOE-BER has provided genomic, metabolomic, and computational strategies to understand how extremophile plants provide evolutionary and physiological targets for improving agricultural and biofuel production.

59 BASIC BIOLOGICAL SCIENCES↗

Deep Symbolic Optimization for Electric Component Sizing in Fixed Topology Power Converters

Power converters (PC) are a major component in any current electronic hardware device. The development and design is usually guided by expert knowledge and heavily relies on human intuition and experience. The process is a very time consuming and costly activity and it is generally hard to improve upon current designs. As a first step towards autonomous PC design, we are here proposing a new framework for the sizing of components for fixed topology PCs based on given design requirements. To this end, we developed surrogate models for rapid evaluation of new topologies and adapt the deep symbolic optimization (DSO) framework to generate new topologies guided by a reinforcement learning training signal. In an empirical evaluation, we show that our DSO based approach is able to find the optimal configuration for all investigated topologies, while reducing the learning time by at least a factor of 100 compared to popular RL algorithms.

Xue, Lincoln↗

TRITIUM TRANSPORT MODELING AT THE PORE SCALE IN CERAMIC BEEDER MATERIALS USING TMAP8

Fusion reactors depend on the blanket material to breed and release tritium at the same rate or faster than it is consumed by the fusion reaction. Cellular ceramic breeders are dense materials that can maintain a high tritium breeding ratio while promoting tritium release thanks to highly connected pores. Assessing the tritium breeding capabilities of these materials requires a combination of extensive experimental and modeling efforts. In this work, we develop and calibrate a multiphysics model of tritium transport. This novel model accounts for ceramic and pore diffusion, trapping and detrapping, and several surface reactions at the pore surface. We perform a sensitivity analysis and calibrate the model by comparing its predictions against experimental measurements of deuterium absorption. The calibrated model is then used to model tritium absorption in samples with different pore microstructures to investigate the effect of pore interconnectivity on tritium absorption. The model is part of the development of the multiscale, multiphysics framework for tritium transport (i.e., the Tritium Migration Analysis Program [TMAP8]), which is itself built on top of the finite element multiphysics framework MOOSE. This study demonstrates some of TMAP8’s capabilities, and is the first step toward assessing the tritium breeding capabilities of ceramic breeder material designs.

08 HYDROGEN↗

Time Distribution Analysis for Task Primitives to Support Dynamic Human Reliability Analysis

To support data collection for dynamic human reliability analysis (HRA), this study investigates time distributions for task primitives defined in the Goals, Operators, Methods, and Selection rules (GOMS)–Human Reliability Analysis (HRA) method and Human Reliability data EXtraction (HuREX). GOMS-HRA was developed to provide cognition-based time and human error probability (HEP) information for dynamic HRA calculations within the Human Unimodel for Nuclear Technology to Enhance Reliability (HUNTER) framework, while HuREX is a comprehensive HRA data collection method developed by the Korea Atomic Energy Research Institute (KAERI). In this paper, we examine time distributions by using experimental data collected from the Simplified Human Error Experimental Program (SHEEP) study, which proposes an HRA data collection framework to complement full-scope simulator research and gather input data for dynamic HRA by using simplified simulators such as the Rancor Microworld simulator. This paper investigates whether the time required for GOMS-HRA and HuREX task primitives fits 13 statistical distributions. Additionally, we compare and discuss the time distributions obtained from both student operators and professional operators. The result was that this study identified several time distributions for five GOMS-HRA and four HuREX task primitives. In the future, the results of this study are expected to provide objective reference data on the elapsed time for task primitives and aid in realistically simulating scenarios within dynamic HRA.

Dynamic Human Reliability Analysis↗

Metal–Organic Frameworks with Zero and Low–Valent Metal Nodes Connected by Tetratopic Phosphine Ligands

Metal–organic frameworks (MOFs) constructed with M 0 nodes are attractive targets due to the reactivity of these low-valent metals, but examples of these MOFs remain exceedingly rare. The rational design of three-dimensional MOFs with Pd 0 and Pt 0 nodes using tetratopic phosphine ligands is reported. Five new MOFs have been synthesized by systematic variation of the phosphine ligands and metal precursors employed, and these represent the first examples of MOFs constructed using phosphine–metal bonds as the sole structural component. Furthermore, the MOFs display solid-state luminescence, with emission maxima that are significantly red-shifted compared to Pd(PPh 3 ) 4 . In addition, a Rh I low-valent coordination solid based on the same linker design is reported, which displays solid-state luminescence that is not observed for the molecular analogue.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Expected occurrence of wildlife in US Atlantic offshore wind areas

Offshore wind energy has entered a pivotal phase of development for the U.S. Atlantic Outer Continental Shelf (OCS), a region that supports critical habitats, migratory corridors and flyways for many marine species. Assessing where and when marine wildlife occurs is a crucial first step in developing a risk assessment framework to evaluate potential risks and impacts of offshore wind development. In this study, we perform this initial assessment by evaluating the expected occurrence of marine mammal, seabird and sea turtle taxa in areas of interest to identify patterns and potential areas of concern. Specifically, this work depicts the expected monthly density of 84 marine species and taxa within each of the 29 active wind energy lease areas plus a 10 km buffer to account for nearby activity. We then compare these densities to subregional thresholds, evaluated as the 90th percentile of the subregion’s monthly density, to provide comparisons across the shelf region. This analysis synthesizes the most recent spatial distribution models of 31 marine mammal taxa (26 species and 5 guilds), 49 seabird species and 4 sea turtle species to provide a unified evaluation of the major marine wildlife in the region. Out of the 84 species and taxa analyzed, 56 exhibit levels of expected density in wind energy areas that exceed the corresponding 90th percentile subregional threshold at some point throughout the year. These results represent an initial assessment in the broader Occurrence, Exposure, Response, and Consequence (OERC) framework, originally developed by the U.S. Navy for marine species risk assessments. These results offer valuable guidance to marine spatial planners, management agencies and offshore wind developers on the expected locations and timing of interaction risk to wildlife species in or near wind energy areas across the region.

17 WIND ENERGY↗

Assessment of the sea surface temperature diurnal cycle in CNRM-CM6-1 based on its 1D coupled configuration

A single-column version of the CNRM-CM6-1 global climate model has been developed to ease development and validation of the boundary layer physics and air–sea coupling in a simplified environment. This framework is then used to assess the ability of the coupled model to represent the sea surface temperature (SST) diurnal cycle. To this aim, the atmospheric–ocean single-column model (AOSCM), called CNRM-CM6-1D, is implemented in a case study derived from the CINDY2011/DYNAMO campaign over the Indian Ocean, where large diurnal SST variabilities have been well documented. Comparing the AOSCM and its uncoupled components (atmospheric SCM and oceanic SCM, called OSCM) highlights the fact that the impact of coupling in the atmosphere results from both the possibility to take into account the diurnal variability of SST, which is not usually available in forcing products, and the change in mean state SST as simulated by the OSCM, with the ocean mean state not being heavily impacted by the coupling. This suggests that coupling feedbacks in the 3D model do not arise from the coupling of ocean and atmosphere vertical column physics but are more due to the large-scale dynamics resolved by the 3D model. Additionally, a sub-daily coupling frequency is needed to represent the SST diurnal variability, but the choice of the coupling time step between 15 min and 3 h does not impact the diurnal temperature range simulated much. The main drawback of a 3 h coupling is delaying the SST diurnal cycle by 5 h in asynchronous coupled models. Overall, the diurnal SST variability is reasonably well represented in CNRM-CM6-1 with a 1 h coupling time step and the upper-ocean model resolution of 1 m. This framework is shown to be a very valuable tool to develop and validate the boundary layer physics and the coupling interface. It highlights the interest to develop other atmosphere–ocean coupling case studies.

54 ENVIRONMENTAL SCIENCES↗

Evaluation of KDP Estimation Algorithm Performance in Rain Using a Known-Truth Framework

Accurate estimation of specific differential phase ( K DP ) is necessary for rain rate estimation, attenuation correction, and hydrometeor classification algorithms. There are numerous published methods to process polarimetric radar observations of propagation differential phase shift (Φ DP ) and estimate K DP , but the corresponding K DP estimate uncertainty is unquantified. This study provides guidance on how commonly used K DP estimation algorithms perform in various environments. Here, we create numerous synthetic (“true”) K DP profiles, integrate over them to obtain “smoothed” Φ DP , and then add noise typical of S-band operational weather radar measurements. Each algorithm is applied to our noisy Φ DP profiles and compared to the true K DP profile such that the errors and uncertainty are quantified. The synthetic K DP profiles are Gaussian in shape, which allows systematic variations in their magnitude and width to determine how each algorithm performs in smooth, slowly changing K DP profiles, as well as steep profiles. Results demonstrate that algorithm performance is dependent on the Φ DP field received. These results are further supported by an error analysis of each algorithm for two more complicated synthetic K DP profiles. Some K DP algorithms allow users to change various tuning parameters; a subset of these tuning parameters is tested to provide guidance on how changing these parameters impacts algorithm performance. We then provide evidence that our known-truth framework provides insight into algorithm performance in observed data through two case studies.

54 ENVIRONMENTAL SCIENCES↗

Enhancing Interpretability in Generative Modeling: Statistically Disentangled Latent Spaces Guided by Generative Factors in Scientific Datasets

This study addresses the challenge of statistically extracting generative factors from complex, high-dimensional datasets in unsupervised or semi-supervised settings. We investigate encoder-decoder-based generative models for nonlinear dimensionality reduction, focusing on disentangling low-dimensional latent variables corresponding to independent physical factors. Introducing Aux-VAE, a novel architecture within the classical Variational Autoencoder framework, we achieve disentanglement with minimal modifications to the standard VAE loss function by leveraging prior statistical knowledge through auxiliary variables. These variables guide the shaping of the latent space by aligning latent factors with learned auxiliary variables. We validate the efficacy of Aux-VAE through comparative assessments on multiple datasets, including astronomical simulations.

97 MATHEMATICS AND COMPUTING↗

Training material models using gradient descent algorithms

High temperature design requires accurate constitutive models to describe material inelastic deformation and failure behavior. Oftentimes, calibrating accurate models devolves into the problem of fitting the model parameters against experimental test data. Here, we present the pyopmat package, an open source framework for calibrating constitutive models against experiment data subjected to various loading conditions using machine learning techniques. The package calculates the exact gradient of the model response with respect to the parameters using a combination of automatic differentiation and the adjoint method. Given this exact gradient, we compare the performance of several gradient-based optimization techniques in fitting realistic constitutive models against data. Here, we demonstrate the efficiency and accuracy of our package through example problems using both synthetic data, generated using known parameter sets, under monotonic and cyclic loading conditions and also with an example applying the techniques developed here to actual high temperature creep-fatigue test data.

36 MATERIALS SCIENCE↗

Gas-Phase Temperature Mapping of Evaporating Microdroplets

Evaporation is a ubiquitous and complex phenomenon of importance to many natural and industrial systems. Evaporation occurs when molecules near the free interface overcome intermolecular attractions with the bulk liquid. As molecules escape the liquid phase, heat is removed, causing evaporative cooling. The influence of evaporative cooling on inducing a temperature difference with the surrounding atmosphere as well as within the liquid is poorly understood. Here, we develop a technique to overcome past difficulties encountered during the study of heterogeneous droplet evaporation by coupling a piezo-driven droplet generation mechanism to a controlled micro-thermocouple to probe microdroplet evaporation. The technique allowed us to probe the gas-phase temperature distribution using a micro-thermocouple (50 μm) in the vicinity of the liquid–vapor interface with high spatial (±10 μm) and temporal (±100 ms) resolution. We experimentally map the temperature gradient formed surrounding sessile water droplets having varying curvature dictated by the apparent advancing contact angle (100° ≲ θ ≲ 165°). The experiments were carried out at temperatures below and above ambient for a range of fixed droplet radii (130 μm ≲ R ≲ 330 μm). Our results provide a primary validation of the centuries-old theoretical framework underpinning heterogeneous droplet evaporation mediated by the working fluid, substrate, and gas thermophysical properties, droplet apparent contact angle, and droplet size. We show that microscale droplets residing on low-thermal-conductivity substrates such as glass absorb up to 8× more heat from the surrounding gas compared to droplets residing on high-thermal-conductivity substrates such as copper. Finally, our work not only develops an experimental understanding of the heat transfer mechanisms governing droplet evaporation but also presents a powerful platform for the study and characterization of liquid–vapor transport at curved interfaces wetting and nonwetting advanced functional surfaces.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Rethinking materials simulations: Blending direct numerical simulations with neural operators

Abstract Materials simulations based on direct numerical solvers are accurate but computationally expensive for predicting materials evolution across length- and time-scales, due to the complexity of the underlying evolution equations, the nature of multiscale spatiotemporal interactions, and the need to reach long-time integration. We develop a method that blends direct numerical solvers with neural operators to accelerate such simulations. This methodology is based on the integration of a community numerical solver with a U-Net neural operator, enhanced by a temporal-conditioning mechanism to enable accurate extrapolation and efficient time-to-solution predictions of the dynamics. We demonstrate the effectiveness of this hybrid framework on simulations of microstructure evolution via the phase-field method. Such simulations exhibit high spatial gradients and the co-evolution of different material phases with simultaneous slow and fast materials dynamics. We establish accurate extrapolation of the coupled solver with large speed-up compared to DNS depending on the hybrid strategy utilized. This methodology is generalizable to a broad range of materials simulations, from solid mechanics to fluid dynamics, geophysics, climate, and more.

36 MATERIALS SCIENCE↗

Different flavors of exact-factorization-based mixed quantum-classical methods for multistate dynamics

Here, the exact factorization approach has led to the development of new mixed quantum-classical methods for simulating coupled electron–ion dynamics. We compare their performance for dynamics when more than two electronic states are occupied at a given time, and analyze: (1) the use of coupled versus auxiliary trajectories in evaluating the electron–nuclear correlation terms, (2) the approximation of using these terms within surface-hopping and Ehrenfest frameworks, and (3) the relevance of the exact conditions of zero population transfer away from nonadiabatic coupling regions and total energy conservation. Dynamics through the three-state conical intersection in the uracil radical cation as well as polaritonic models in one dimension are studied.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Impact of multiplicity fluctuations on entropy scaling across system size

The initial state is one of the greatest uncertainties in heavy-ion collisions. A model-agnostic approach is taken in the phenomenological Trento framework which constrains parameters using Bayesian analysis. However, the color-glass condensate (CGC) effective theory predicts initial energy densities that lie outside the recent Bayesian analyses due, in part, to the assumption in Trento of event-by-event multiplicity fluctuations following a Γ distribution. We compare the Trento-preferred √T A T B scaling to CGC-like T A T B scaling coupled with log-normal fluctuations in AuAu and dAu collisions and find there is a significant impact on the multiplicity distributions and on the eccentricities, which may affect the extraction of viscosity in small systems.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Unveiling Baryon Charge Carriers through Charge Stopping in Isobar Collisions

Utilizing a comprehensive (3 + 1)⁢D relativistic hydrodynamic framework with multiple conserved charge currents and charge-dependent lattice-QCD-based equation of state, we study the baryon and electric charge number deposition at midrapidity in isobar Ru + Ru and Zr + Zr collisions at the center of mass energy $\sqrt{s}_{NN}$ = 200 GeV. Comparing our predictions with upcoming experimental data from the Relativistic Heavy Ion Collider will shed light on the existence of baryon junctions.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

FL-DISCO: Federated Generative Adversarial Network for Graph-based Molecule Drug Discovery: Special Session Paper

The outbreak of the global COVID-19 pandemic emphasizes the importance of collaborative drug discovery for high effectiveness; however, due to the stringent data regulation, data privacy becomes an imminent issue needing to be addressed to enable collaborative drug discovery. In addition to the data privacy issue, the efficiency of drug discovery is another key objective since infectious diseases spread exponentially and effectively conducting drug discovery could save lives. Advanced Artificial Intelligence (AI) techniques are promising to solve these problems: (1) Federated Learning (FL) is born to keep data privacy while learning data from distributed clients; (2) graph neural network (GNN) can extract structural properties of molecules whose underlying architecture is the connected atoms; and (3) generative adversarial network (GAN) can generate novel molecules while retaining the properties learned from the training data. In this work, we make the first attempt to build a holistic collaborative and privacy-preserving FL framework, namely FL- DISCO, which integrates GAN and GNN to generate molecular graphs. Experimental results demonstrate the effectiveness of FL- DISCO on: (1) IID data for ESOL and QM9, where FL-DISCO can generate highly novel compounds with high drug-likeliness, uniqueness and LogP scores compared to the baseline; (2) non- IID data for ESOL and QM9, where FL-DISCO generates 100% novel compounds with high validity and LogP scores compared to the baseline. We also demonstrate how different fractions of clients, generator and discriminator architectures affect our evaluation scores.

Manu, Daniel↗

HetArch: Heterogeneous Microarchitectures for Superconducting Quantum Systems

Noisy Intermediate-Scale Quantum Computing (NISQ) has dominated headlines in recent years, with the longer-term vision of Fault-Tolerant Quantum Computation (FTQC) offering significant potential but at currently intractable resource costs and quantum error correction (QEC) overheads. For problems of interest, FTQC will require millions of physical qubits with long coherence times, high-fidelity gates, and compact sizes to surpass classical systems. Just as heterogeneous specialization has offered scaling benefits in classical computing, it is likewise gaining interest in FTQC. However, systematic use of heterogeneity in either hardware or software elements of FTQC systems remains a serious challenge due to the vast design space and the variable physical constraints. This paper meets the challenge of making heterogeneous FTQC design practical by introducing HetArch, a toolbox for designing heterogeneous quantum systems, and using it to explore heterogeneous design scenarios. Using a hierarchical approach, we successively break quantum algorithms into smaller operations (akin to classical application kernels), thus greatly simplifying the design space and resulting tradeoffs. Specializing to superconducting systems, we then design optimized heterogeneous hardware composed of varied superconducting devices, abstracting physical constraints into design rules that enable devices to be assembled into standard cells optimized for specific operations, which, in turn, form heterogeneous modules optimized for quantum subroutines. Finally, we provide a heterogeneous design space exploration framework which reduces the simulation burden by a factor of 10^4 or more and allows us to characterize optimal design points. We use these techniques to design superconducting quantum modules for entanglement distillation, error correction, and code teleportation, reducing error rates by 2.6×, 10.7×, and 3.4× compared to homogeneous systems.

Quantum Computing, Quantum Physics, Computer Archi↗

CUDO: closed-form universal dwell-time optimization for computer-controlled optical surfacing

Precision optical figuring demands fast and accurate dwell time optimization to reach nanometer- and sub-nanometer-level accuracy in next-generation optical systems. We introduce CUDO (closed-form universal dwell-time optimization), the first, to the best of our knowledge, unified closed-form analytical framework that supports both function-form and matrix-form dwell time models in computer-controlled optical surfacing (CCOS). In contrast to traditional methods, which rely on iterative optimization and hyperparameter tuning, our framework derives direct analytical solutions with no adjustable parameters. This approach unifies the solution principles of existing methods within a single mathematical model, delivering three key advantages: (1) accuracy on par with, or superior to, iterative solvers, (2) substantial reduction in computation time, and (3) numerical robustness. Comparative studies with prior art confirm that closed-form solutions achieve equivalent residual error while removing runtime bottlenecks. By simplifying the implementation and enabling real-time, scalable deployment, CUDO establishes a practical foundation for future deterministic fabrication of large-aperture and high-performance optics.

36 MATERIALS SCIENCE↗