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At least 577 records · Page 32

Engineering Terpene Production Pathways in Methylobacterium extorquens AM1

Terpenes are diverse specialized metabolites naturally found within plants and have important roles in inter-species communication, adaptation and interaction with the environment. Their industrial applications span a broad range, including fragrances, flavors, cosmetics, natural colorants to agrochemicals and therapeutics, yet formal chemical synthesis is economically challenging due to structural complexities. Engineering terpene biosynthesis could represent an alternative in microbial biotechnological workhorses, such as Saccharomyces cerevisiae or Escherichi coli, utilizing sugars or complex media as feedstocks. Host species that metabolize renewable and affordable carbon sources may offer unique sustainable biotechnological alternatives. Methylotrophs are bacteria with the capacity to utilize one-carbon feedstocks, such as methanol or formate. They colonize the phyllosphere (above-ground area) of plants, and many accumulate abundant carotenoid pigments. Methylotrophs have the capacity to take up and use a subset of the rare earth elements known as lanthanides. These metals can enhance one-carbon (methylotrophic) metabolism. Here, we investigated whether manipulating the metabolism enables and enhances terpene production. A carotenoid-deficient mutant potentially liberates carbon, which may contribute to bioproduct accumulation. To test this hypothesis, terpene-producing bacterial strains regulated by two distinct promoters were generated. Wildtype Methylobacterium extorquens, ∆Meta1_3665, a methylotrophic mutant lacking the carotenoid pathway, and an E. coli strain were transformed with an exogenous terpene pathway and grown both in the presence and absence of lanthanides. The extraction, and the comparison of analytical profiles, provided evidence that engineered cultured M. extorquens under control of a native, inducible methylotrophic promoter can yield the sesquiterpene patchoulol when supplemented with lanthanide. In contrast, using a moderate-strength constitutive promoter failed to give production. We demonstrated colonization of the phyllosphere with the engineered strains, supporting the future engineering of selected species of the plant microbiome and with promising implications for the synthetic biology of small molecules.

59 BASIC BIOLOGICAL SCIENCES↗

A Wireless Underground Sensor Network Field Pilot for Agriculture and Ecology: Soil Moisture Mapping Using Signal Attenuation

Wireless Underground Sensor Networks (WUSNs) that collect geospatial in situ sensor data are a backbone of internet-of-things (IoT) applications for agriculture and terrestrial ecology. In this paper, we first show how WUSNs can operate reliably under field conditions year-round and at the same time be used for determining and mapping soil conditions from the buried sensor nodes. We demonstrate the design and deployment of a 23-node WUSN installed at an agricultural field site that covers an area with a 530 m radius. The WUSN has continuously operated since September 2019, enabling real-time monitoring of soil volumetric water content (VWC), soil temperature (ST), and soil electrical conductivity. Secondly, we present data collected over a nine-month period across three seasons. We evaluate the performance of a deep learning algorithm in predicting soil VWC using various combinations of the received signal strength (RSSI) from each buried wireless node, above-ground pathloss, the distance between wireless node and receive antenna (D), ST, air temperature (AT), relative humidity (RH), and precipitation as input parameters to the model. The AT, RH, and precipitation were obtained from a nearby weather station. We find that a model with RSSI, D, AT, ST, and RH as inputs was able to predict soil VWC with an R 2 of 0.82 for test datasets, with a Root Mean Square Error of ±0.012 (m 3 /m 3 ). Hence, a combination of deep learning and other easily available soil and climatic parameters can be a viable candidate for replacing expensive soil VWC sensors in WUSNs.

47 OTHER INSTRUMENTATION↗

The approximate second order coupled-cluster method based on a size-consistent Brillouin–Wigner partitioning

We present a variant of the approximate second order coupled-cluster method (CC2) with a two-parameter size-consistent Brillouin–Wigner (BW-s) partitioning instead of a Møller–Plesset (MP) partitioning for the unperturbed Hamiltonian, which we refer to as BWs-CC2. The computational complexity of this model scales identically to CC2 with molecular size. Conventional CC2 and its regularized BWs-CC2 variants, as well as conventional MP2 and two of its regularized BW-s2 variants, were assessed on a 535 element database spanning thermochemistry, non-covalent interactions, barrier heights, and isomerization energies. To ensure a well-defined model chemistry, the assessment was performed using internally stable spin-polarized Hartree–Fock (HF) orbitals in the finite aug-cc-pVQZ basis without counterpoise corrections. As a result of using stable orbitals, contrary to conventional wisdom, we find that CC2 substantially outperforms MP2 on molecules with significantly spin contaminated reference orbitals without a significant increase in error on systems with a spin-pure reference, showing the value of its single substitutions. While no single choice of regularization parameters can be optimal for all datasets, we find that BWs-CC2 generally outperforms both CC2 and BW-s2 with a single judicious parameter choice. Additional tests on dipole moments and bond lengths of diatomics provide further support for the utility of this choice. Furthermore, the main outliers and poorest performing cases are associated with large amounts of spin-contamination in the HF reference, which is indicative of systems with either strong correlation or extensive artificial symmetry breaking. Overall, these findings argue that the perception of the quality of the CC2 ground state should be reevaluated and that it can be further improved upon by the soundly based BWs-CC2 variant with the recommended parameter choice.

Correlation energy↗

Association mapping across a multitude of traits collected in diverse environments in maize

Abstract Classical genetic studies have identified many cases of pleiotropy where mutations in individual genes alter many different phenotypes. Quantitative genetic studies of natural genetic variants frequently examine one or a few traits, limiting their potential to identify pleiotropic effects of natural genetic variants. Widely adopted community association panels have been employed by plant genetics communities to study the genetic basis of naturally occurring phenotypic variation in a wide range of traits. High-density genetic marker data—18M markers—from 2 partially overlapping maize association panels comprising 1,014 unique genotypes grown in field trials across at least 7 US states and scored for 162 distinct trait data sets enabled the identification of of 2,154 suggestive marker-trait associations and 697 confident associations in the maize genome using a resampling-based genome-wide association strategy. The precision of individual marker-trait associations was estimated to be 3 genes based on a reference set of genes with known phenotypes. Examples were observed of both genetic loci associated with variation in diverse traits (e.g., above-ground and below-ground traits), as well as individual loci associated with the same or similar traits across diverse environments. Many significant signals are located near genes whose functions were previously entirely unknown or estimated purely via functional data on homologs. This study demonstrates the potential of mining community association panel data using new higher-density genetic marker sets combined with resampling-based genome-wide association tests to develop testable hypotheses about gene functions, identify potential pleiotropic effects of natural genetic variants, and study genotype-by-environment interaction.

59 BASIC BIOLOGICAL SCIENCES↗

Klickitat Valley Health Central Utility Plant Modernization

This project replaced legacy heating and cooling equipment at Klickitat Valley Health (KVH), a rural hospital in Goldendale, Washington. Work included constructing a new chiller building, installing modern hydronic piping systems, replacing the main Emergency Department air handler (Air Handlining Unit (AHU-1)), upgrading electrical systems, and converting the Emergency Department wing from electric reheat to hydronic heating and cooling. Commissioning, testing, adjusting, and balancing were completed under this grant. These upgrades improve energy efficiency, operational resilience, and system reliability while preparing the campus for future electrification and renewable energy integration. They also support growth in healthcare services for a rural population. The project directly reduces energy costs and provides a foundation for future decarbonization measures, including a FEMA-funded microgrid and a large-scale ground source heat pump (GSHP) project. These follow-on initiatives would not have been possible without the hydronic backbone built through this project.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Foxtail mosaic virus-induced gene silencing (VIGS) in switchgrass (Panicum virgatum L.)

Abstract Background Although the genome for the allotetraploid bioenergy crop switchgrass ( Panicum virgatum ) has been established, limitations in mutant resources have hampered in planta gene function studies toward crop optimization. Virus-induced gene silencing (VIGS) is a versatile technique for transient genetic studies. Here we report the implementation of foxtail mosaic virus (FoMV)-mediated gene silencing in switchgrass in above- and below-ground tissues and at different developmental stages. Results The study demonstrated that leaf rub-inoculation is a suitable method for systemic gene silencing in switchgrass. For all three visual marker genes, Magnesium chelatase subunit D ( ChlD ) and I ( ChlI ) as well as phytoene desaturase ( PDS ), phenotypic changes were observed in leaves, albeit at different intensities. Gene silencing efficiency was verified by RT-PCR for all tested genes. Notably, systemic gene silencing was also observed in roots, although silencing efficiency was stronger in leaves (~ 63–94%) as compared to roots (~ 48–78%). Plants at a later developmental stage were moderately less amenable to VIGS than younger plants, but also less perturbed by the viral infection. Conclusions Using FoMV-mediated VIGS could be achieved in switchgrass leaves and roots, providing an alternative approach for studying gene functions and physiological traits in this important bioenergy crop.

59 BASIC BIOLOGICAL SCIENCES↗

A Simple Data-Centric Methodology for Producible Geothermal Well Determinations: Preprint

The Bureau of Land Management (BLM) has traditionally lacked a standardized methodology for determining if a newly drilled geothermal well is "producible," a designation essential for deciding whether a lease should be "held by production." This is a straightforward problem to solve in oil and gas: Demonstrate that a well is economically viable, meaning it produces sufficient oil or gas to exceed direct operating costs and lease-related expenses, such as rentals or minimum royalties. In geothermal, the problem is more complex: Geothermal wells are tightly coupled with the downstream infrastructure - specifically, the power plant, which is often not designed until well after a lease is deemed as "held by production." Although this designation is critical for advancing geothermal power plant development on BLM-managed lands, current geothermal well assessments often rely on ad hoc approaches that can be complex, operator-biased, and heavy in assumptions related to economic viability. To address this, we have developed two complementary methodologies: a minimum power requirement-based approach and a productivity index (PI)-based approach. These methods leverage key flow test data - pressure, temperature, flow rate, and specific enthalpy - to provide reliable and standardized producible well determinations. The minimum power requirement-based approach evaluates wells against specific power output thresholds informed by reservoir experts and the associated temperature requirements. The PI-based approach assesses well productivity using widely accepted reservoir engineering metrics, proposing a threshold of 2.5 kg/s/bar. Both methods are data-driven and grounded in empirical production data from operational geothermal wells, avoiding uncertain economic assumptions while maintaining decision-making accuracy. Wells falling below key performance thresholds (i.e., PI, specific power) are deemed non-producible. These methodologies aim to streamline BLM's decision-making process, reduce nontechnical barriers to geothermal energy adoption, and enable regulatory expansion into states lacking geothermal expertise. Preliminary results indicate clear trends and thresholds in production data that provide actionable insights for evaluating well producibility. Validation using well completion report (WCR) data is ongoing, with promising results demonstrating the potential for these standardized methodologies to impact geothermal development significantly.

15 GEOTHERMAL ENERGY↗

Testing electron–phonon coupling for the superconductivity in kagome metal CsV 3 Sb 5

In crystalline materials, electron-phonon coupling (EPC) is a ubiquitous many-body interaction that drives conventional Bardeen-Cooper-Schrieffer superconductivity. Recently, in a new kagome metal CsV 3 Sb 5 , superconductivity that possibly intertwines with time-reversal and spatial symmetry-breaking orders is observed. Density functional theory calculations predicted weak EPC strength, λ, supporting an unconventional pairing mechanism in CsV 3 Sb 5 . However, experimental determination of λ is still missing, hindering a microscopic understanding of the intertwined ground state of CsV 3 Sb 5 . Here, using 7-eV laser-based angle-resolved photoemission spectroscopy and Eliashberg function analysis, we determine an intermediate λ=0.45–0.6 at T = 6 K for both Sb 5p and V 3d electronic bands, which can support a conventional superconducting transition temperature on the same magnitude of experimental value in CsV3Sb5. Remarkably, the EPC on the V 3d-band enhances to λ~0.75 as the superconducting transition temperature elevated to 4.4 K in Cs(V 0.93 Nb 0.07 ) 3 Sb 5 . Our results provide an important clue to understand the pairing mechanism in the kagome superconductor CsV 3 Sb 5 .

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Meta-GGA performance in solids at almost GGA cost

A recent modification, r 2 SCAN, of the strongly constrained and appropriately normed (SCAN) meta-generalized gradient approximation (GGA) exchange-correlation functional mostly eliminates numerical instabilities and attendant integration grid sensitivities exhibited by SCAN. Here, we show that the successful deorbitalization of SCAN to SCAN-L (SCAN with density Laplacian dependence) carries over directly to yield r 2 SCAN-L. A major benefit is that the high iteration counts that hindered the use of SCAN-L are eliminated in r 2 SCAN-L. It therefore is a computationally much faster meta-GGA than its orbital-dependent antecedent. In this work, validation data for molecular heats of formation, bond lengths, and vibration frequencies (G3/99X, T96-R, and T82-F test sets, respectively) and on lattice constants, and cohesive energies (for 55 solids) and bulk moduli (for 40 solids) are provided. In addition, we show that the overmagnetization of bcc Fe, hcp Co, and fcc Ni persists in r 2 SCAN but does not appear in r 2 SCAN-L. Distinct from SCAN, both r 2 SCAN and r 2 SCAN-L give the correct nonmagnetic ground state for bcc V.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Open Data and Deep Semantic Segmentation for Automated Extraction of Building Footprints

Advances in machine learning and computer vision, combined with increased access to unstructured data (e.g., images and text), have created an opportunity for automated extraction of building characteristics, cost-effectively, and at scale. These characteristics are relevant to a variety of urban and energy applications, yet are time consuming and costly to acquire with today’s manual methods. Several recent research studies have shown that in comparison to more traditional methods that are based on features engineering approach, an end-to-end learning approach based on deep learning algorithms significantly improved the accuracy of automatic building footprint extraction from remote sensing images. However, these studies used limited benchmark datasets that have been carefully curated and labeled. How the accuracy of these deep learning-based approach holds when using less curated training data has not received enough attention. The aim of this work is to leverage the openly available data to automatically generate a larger training dataset with more variability in term of regions and type of cities, which can be used to build more accurate deep learning models. In contrast to most benchmark datasets, the gathered data have not been manually curated. Thus, the training dataset is not perfectly clean in terms of remote sensing images exactly matching the ground truth building’s foot-print. A workflow that includes data pre-processing, deep learning semantic segmentation modeling, and results post-processing is introduced and applied to a dataset that include remote sensing images from 15 cities and five counties from various region of the USA, which include 8,607,677 buildings. The accuracy of the proposed approach was measured on an out of sample testing dataset corresponding to 364,000 buildings from three USA cities. The results favorably compared to those obtained from Microsoft’s recently released US building footprint dataset.

97 MATHEMATICS AND COMPUTING↗

Tree hydrodynamic modelling of the soil–plant–atmosphere continuum using FETCH3

Modelling the water transport along the soil–plant–atmosphere continuum is fundamental to estimating and predicting transpiration fluxes. A Finite-difference Ecosystem-scale Tree Crown Hydrodynamics model (FETCH3) for the water fluxes across the soil–plant–atmosphere continuum is presented here. The model combines the water transport pathways into one vertical dimension, and assumes that the water flow through the soil, roots, and above-ground xylem can be approximated as flow in porous media. This results in a system of three partial differential equations, resembling the Richardson–Richards equation, describing the transport of water through the plant system and with additional terms representing sinks and sources for the transfer of water from the soil to the roots and from the leaves to the atmosphere. The numerical scheme, developed in Python 3, was tested against exact analytical solutions for steady state and transient conditions using simplified but realistic model parameterizations. The model was also used to simulate a previously published case study, where observed transpiration rates were available, to evaluate model performance. With the same model setup as the published case study, FETCH3 results were in agreement with observations. Through a rigorous coupling of soil, root xylem, and stem xylem, FETCH3 can account for variable water capacitance, while conserving mass and the continuity of the water potential between these three layers. FETCH3 provides a ready-to-use open access numerical model for the simulation of water fluxes across the soil–plant–atmosphere continuum.

54 ENVIRONMENTAL SCIENCES↗

Geophysical measurements of a demolition at NRF

On May 31 st , 2025, at approximately 14:40:00 UTC, the former Submarine First Westinghouse (SW1) structure housing a large crane was demolished at the Naval Reactors Facility (NRF) located within the perimeter of the Idaho National Laboratory (INL). Several targeted explosives were used to facilitate this demolition. The INL Seismic Monitoring Program (SMP) installed four temporary seismic instrument suites around the site of the demolition in order to monitor ground motion including measuring peak ground acceleration (PGA), peak ground velocity (PGV), and to calculate peak ground displacement (PGD). The demolition produced three types of waves: body waves, surface waves, and acoustic waves. The acoustic wave represents the largest signal received. The PGA, measured on the eastern component of the instrument located approximately 95m away from the demolition site, was 0.187g. The PGV measured was 0.0004 m/s, and the PGD was approximately 0.000006m. Rayleigh waves incident on an instrument located at the Advanced Test Reactor, about 7.6km away, were used to estimate a magnitude of 0.3 at the ATR, representing a yield of energy equivalent to approximately 3 grams of TNT.

58 - GEOSCIENCES↗

Bayesian averaging for ground state masses of atomic nuclei in a Machine Learning approach

We present global predictions of the ground state mass of atomic nuclei based on a novel Machine Learning algorithm. We combine precision nuclear experimental measurements together with theoretical predictions of unmeasured nuclei. This hybrid data set is used to train a probabilistic neural network. In addition to training on this data, a physics-based loss function is employed to help refine the solutions. The resultant Bayesian averaged predictions have excellent performance compared to the testing set and come with well-quantified uncertainties which are critical for contemporary scientific applications. We assess extrapolations of the model’s predictions and estimate the growth of uncertainties in the region far from measurements.

74 ATOMIC AND MOLECULAR PHYSICS↗

Spatiotemporal predictions of toxic urban plumes using deep learning

Industrial accidents, chemical spills, and structural fires can release large amounts of harmful materials that disperse into urban atmospheres and impact populated areas. Computer models are typically used to predict the transport of toxic plumes by solving fluid dynamical equations. However, these models can be computationally expensive due to the need for many grid cells to simulate turbulent flow and resolve individual buildings and streets. In emergency response situations, alternative methods are needed that can run quickly and adequately capture important spatiotemporal features. Here, we present a novel deep learning model called ST-GasNet inspired by the mathematical equations that govern the behavior of plumes as they disperse through the atmosphere. ST-GasNet learns the spatiotemporal dependencies from a limited set of temporal sequences of ground-level toxic urban plumes generated by a high-resolution large eddy simulation model. On independent sequences, ST-GasNet accurately predicts the late-time spatiotemporal evolution, given the early-time behavior as an input, even when a building splits a large plume into smaller plumes. By incorporating large-scale wind boundary condition information, ST-GasNet achieves a prediction accuracy of at least 90% on test data for the entire prediction period.

Civil and Environmental Engineering↗

Evaluation of U-net-based Image Segmentation Model to Digital Mammography

Detecting suspicious lesions in medical imaging is the important first step in computer-aided detection (CAD) systems. However, detecting abnormalities in breast tissue is difficult due to the lesion's varying size, shape, margin, and contrast with the background tissue. We focused on mass segmentation, a method that provides notable morphological features by outlining contours of masses. Accurate segmentation is crucial for correct diagnosis. Recent advancements in deep learning have improved object detection and segmentation, and these techniques are also being applied to medical imaging studies. We focused on U-net, which is a recently developed mass segmentation algorithm based on a fully convolutional network. The U-net architecture consists of (1) a contracting path to increase the resolution of the output and (2) a symmetric expanding path to better locate the region of interest. The performance of a U-net model was tested with 63 digital mammograms from INbreast, a publicly available database. We trained the model with images resized to 40x40 pixels and conducted 10-fold cross-validation to prevent overfitting. The model's performance with respect to breast density and the lesion's BI-RADS rating was also investigated. Dice coefficients (DC) were used as a performance measure to compare the predicted segmentation of the model with the ground truth. Logistic regression and an analysis of variance were performed to determine the significance of the DCs with regards to breast density and lesion behavior and to calculate the 95% confidence interval. The average DC was 0.80. The difference between DCs for BI-RADS 2 and 4c and for BI-RADS 2 and 5 were significant, suggesting that the model has more difficulty in segmenting benign lesions.

Cho, Priscilla↗

Surrogate Suspension-Resuspension Study

The objective of this study was to conduct a series of tests looking at the deposition and resuspension of aerosol particles deposited onto multiple representative substrate surfaces for a range of particle sizes under varying environmental conditions. The benefit of this study is to provide additional insight into the understanding of early time resuspension from different mechanisms and compare to existing literature. The resuspension methods utilized in this study were full-scale and the substrates were representative of real- world ground level conditions. Multiple experiments were conducted to assess the impact on resuspension from the varying substrates and mechanisms. The results of this study show variations in the size distribution of aerosol as a function of height from the source resuspension factors. Additionally, the aerosolized mass concentration and resuspension factor were evaluated. The maximum resuspension factor was found to be on the order of 10 -4 m -1 which is higher than most resuspension factors found in literature but represents idealized conditions due to the well constrained experimental setup.

36 MATERIALS SCIENCE↗

Operation Tumbler-Snapper

Operation Tumbler-Snapper began on April 1, 1952, when Able, a low-yield nuclear device, detonated 793 feet over the Frenchman Flat area of the Nevada Proving Ground. Able, the first of four airdrops conducted as the Tumbler phase of the Operation, provided the Department of Defense with reliable data on the relationship between height of burst and blast overpressure. Such information was vital to establishing the battlefield use of nuclear weapons. A final set of four tower detonations, the Snapper phase, provided the AEC and Los Alamos with diagnostic data on new weapon designs. Although the test series was nominally divided between the AEC and the DOD, this distinction held little meaning because two of the Tumbler effects tests, Charlie and Dog, employed experimental devices and all four of the Snapper tests involved effects experiments, including military troop maneuvers.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

Designing Yield Grids for Airborne Nuclear Explosions to Maintain Decrements in Rayleigh Waveform Amplitudes

This document details a method for selecting grid points that sample the yields of airborne, low yield nuclear explosions that constrains the relative size of seismic waveforms sourced by explosions that are parameterized by this grid. In detail, we impose this constraint so that the vertical component of ground displacement that is sourced by explosions with a fixed height of burst (HoB) at grid point k change by a fixed factor of a when compared to the waveform amplitudes sourced by explosions at grid point k + 1, as observed at a fixed standoff distance. This gridding thereby preserves amplitude ratios along the grid so that they are agnostic to k. We assert that this method is useful in tests that apply algorithms against synthetic or augmented datasets for which the performance of the algorithm must be measured against source size, and waveform amplitudes must change uniformly (e.g., Berg et al, 2025).

58 GEOSCIENCES↗