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At least 847 records · Page 47

FiXR : a framework to reconstruct fiber cross-sections from X-ray fiber diffraction experiments

Ab initio reconstruction methods have revolutionized the capabilities of small-angle X-ray scattering (SAXS), allowing the data-driven discovery of previously unknown molecular conformations, exploiting optimization heuristics and assumptions behind the composition of globular molecules. While these methods have been successful for the analysis of small particles, their impact on fibrillar assemblies has been more limited. The micrometre-range size of these assemblies and the complex interaction of their periodicities in their scattering profiles indicate that the discovery of fibril structures from SAXS measurements requires novel approaches beyond extending existing tools for molecular discovery. In this work, it is proposed to use SAXS measurements, together with diffraction theory, to infer the electron distribution of the average cross-section of a fiber. This cross-section is modeled as a discrete electron density with continuous support, allowing representations beyond binary distributions. Additional constraints, such as non-negativity or smoothness/connectedness, can also be added to the framework. The proposed approach is tested using simulated SAXS data from amyloid β fibril models and using measured data of Tobacco mosaic virus from SAXS experiments, recovering the geometry and density of the cross-sections in all cases. The approach is further tested by analyzing SAXS data from different amyloid β fibril assemblies, with results that are in agreement with previously proposed models from cryo-EM measurements. The limitations of the proposed method, together with an analysis of the robustness of the method and the combination with different experimental sources, are also discussed.

Biochemistry & Molecular Biology↗

Neural Network-Based Electric Vehicle Range Prediction for Smart Charging Optimization

Range prediction is a standard feature in most modern road vehicles, allowing drivers to make informed decisions about when to refuel. Most vehicles make range predictions through data- or model-driven means, monitoring the average fuel consumption rate or using a tuned vehicle model to predict fuel consumption. The uncertainty of future driving conditions makes the range prediction problem challenging, particularly for less pervasive battery electric vehicles (BEV). Most contemporary machine learning-based methods attempt to forecast the battery SOC discharge profile to predict vehicle range. In this work, we propose a novel approach using two recurrent neural networks (RNNs) to predict the remaining range of BEVs and the minimum charge required to safely complete a trip. Each RNN has two outputs that can be used for statistical analysis to account for uncertainties; the first loss function leads to mean and variance estimation (MVE), while the second results in bounded interval estimation (BIE). These outputs of the proposed RNNs are then used to predict the probability of a vehicle completing a given trip without charging, or if charging is needed, the remaining range and minimum charging required to finish the trip with high probability. Training data was generated using a low-order physics model to estimate vehicle energy consumption from historical drive cycle data collected from medium-duty last-mile delivery vehicles. Here, the proposed method demonstrated high accuracy in the presence of day-to-day route variability, with the root-mean-square error (RMSE) below 6% for both RNN models.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Molecular property prediction for very large databases with natural language processing: a case study in ionic liquid design

The prospect of using artificial intelligence (AI) to accurately screen very large databases of compounds for multiple properties has yet to be realized. Here, we explore this possibility using ionic liquids (ILs) which offer unique physicochemical properties and excellent tunability, making them highly versatile solvents for various research applications. Screening millions of potential ILs for the best perfomance for use in specific tasks with experimental methods alone however, is impractical. Further, traditional’ physics-based computational chemistry is hindered by high computational cost. To address this challenge, we leverage a natural language processing (NLP)-based molecular embedding technique with advanced machine learning (ML) models to predict seven key IL properties: viscosity, density, ionic conductivity, surface tension, melting temperature, toxicity, and water solubility. Comprehensive datasets for these properties are obtained, then NLP featurization with Mol2vec is compared with other featurization techniques such as 2D Morgan fingerprints, and 3D quantum chemistry-derived sigma profiles. NLP-based featurization exhibited the best predictive performance, achieving the highest R 2 and lowest RMSE values for all the studied IL properties. Further, we present case studies of how ILs might be screened using combined property criteria for practical cases – lignocellulosic biomass processing, CO 2 capture, and optimal electrolytes for batteries – screening a novel database of ∼10.6 million generated feasible ILs. The results introduce NLP as a powerful tool for engineering many designer solvents with desirable properties for task specific applications.

Mohan, Mood [Oak Ridge National Laboratory (ORNL),↗

Neural-Network-Enhanced COTSIM: Advancing Predictive Capabilities for Fast DIII-D Simulations

Sustaining fusion reactions in tokamaks requires heating plasma to thermonuclear temperatures while maintaining confinement and stability. Neutral beam injection (NBI) provides heating, current drive, torque, and fueling, while electron cyclotron (EC) waves are widely used for heating and current drive; together, these actuators shape the plasma current, temperature, and density profiles. The control-oriented tokamak simulator (COTSIM), a predictive, control-oriented code, has been enhanced with neural-network surrogates for transport and sources. Turbulent transport is predicted by MMMnet—a neural-network version of the updated multimode model (MMM 9.0.10)—with significantly reduced computation time relative to MMM; neoclassical transport follows the Chang–Hinton model. NUBEAMnet, a surrogate of the Monte Carlo NUBEAM module, predicts beam-driven heating, current, and torque. EC heating and current drive use a control-oriented, empirically scaled source model; plasma resistivity follows the Spitzer formulation; bootstrap current uses the Sauter model. Equilibrium is computed using both prescribed and fixed-boundary solvers (FBSs), and the pedestal structure is modeled with an empirical pedestal model. For a representative DIII-D discharge, COTSIM predicts electron and ion temperature and safety-factor profiles in close agreement with TRANSP predictive and interpretive simulations while extending predictions through the pedestal region to the plasma edge (versus 80% of the minor radius in TRANSP). Furthermore, the equivalent COTSIM simulation runs in under 3 min compared to about 2 h for TRANSP, enabling rapid scenario planning, optimization of tokamak operation, and between-pulse control design.

Control-oriented tokamak simulator (COTSIM)↗

Scalable Comparative Visualization of Ensembles of Call Graphs

Optimizing the performance of large-scale parallel codes is critical for efficient utilization of computing resources. Code developers often explore various execution parameters, such as hardware configurations, system software choices, and application parameters, and are interested in detecting and understanding bottlenecks in different executions. They often collect hierarchical performance profiles represented as call graphs, which combine performance metrics with their execution contexts. The crucial task of exploring multiple call graphs together is tedious and challenging because of the many structural differences in the execution contexts and significant variability in the collected performance metrics (e.g., execution runtime). In this paper, we present Ensemble CallFlow to support the exploration of ensembles of call graphs using new types of visualizations, analysis, graph operations, and features. We introduce ensemble-Sankey , a new visual design that combines the strengths of resource-flow (Sankey) and box-plot visualization techniques. Whereas the resource-flow visualization can easily and intuitively describe the graphical nature of the call graph, the box plots overlaid on the nodes of Sankey convey the performance variability within the ensemble. Our interactive visual interface provides linked views to help explore ensembles of call graphs, e.g., by facilitating the analysis of structural differences, and identifying similar or distinct call graphs. Finally, we demonstrate the effectiveness and usefulness of our design through case studies on large-scale parallel codes.

97 MATHEMATICS AND COMPUTING↗

Techno-Economic Analysis for a Potential Geothermal District Heating System in Tuttle, Oklahoma: Preprint

Geothermal deep direct use (DDU) has potential across a wide swath of the United States but is underutilized due to challenging project economics associated with developing a deep geothermal resource for a large-scale and variable heat demand. The National Renewable Energy Laboratory (NREL) and University of Oklahoma evaluated the feasibility of a geothermal district heating (GDH) and cooling system in two schools and 250 houses by utilizing existing oil and gas (O&G) wells in Tuttle, Oklahoma. Heating and cooling demand in the two schools and a typical single-family house were modeled using EnergyPlus building energy simulation software. The modeling results indicated that annual heating demand in two schools and 250 houses is approximately 2.61 GWhth, and cooling demand in the two schools is approximately 2.65 GWhth. In this scope, the techno-economic analysis (TEA) was conducted using the GEOPHIRES tool combined with the TOUGH2 reservoir simulator. The reservoir performance, including geothermal heat production capacity, was modeled by the reservoir simulator TOUGH2. Then, levelized cost of heat (LCOH) was calculated using GEOPHIRES version 3.0, which includes new features such as hourly heat load optimization and peak performance evaluation. Geothermal reservoir temperature was estimated as 90.5 degrees C at a total depth of 3.3 km by the regional average temperature gradient of 22.8 degrees C/km and validated by cation geothermometer calculations. Four production scenarios with two different well configurations and two different heat load profiles have been developed for well flow rates ranging between 3.1 kg/s and 9.3 kg/s. The LCOH of the district heating and cooling system was calculated between $95 and $210/MWh ($28/MMBtu to $62/MMBtu) for four different production scenarios. Typical natural gas prices for residential customers in Oklahoma have ranged from 9 to 19 $/MMBtu over the past decade, which indicates a challenge for deployment of such a GDH system.

deep direct-use↗

Techno-Economic Analysis for a Potential Geothermal District Heating System in Tuttle, Oklahoma

Geothermal deep direct use (DDU) has potential across a wide swath of the United States but is underutilized due to challenging project economics associated with developing a deep geothermal resource for a large-scale and variable heat demand. The National Renewable Energy Laboratory (NREL) and University of Oklahoma evaluated the feasibility of a geothermal district heating (GDH) and cooling system in two schools and 250 houses by utilizing existing oil and gas (O&G) wells in Tuttle, Oklahoma. Heating and cooling demand in the two schools and a typical single-family house were modeled using EnergyPlus building energy simulation software. The modeling results indicated that annual heating demand in two schools and 250 houses is approximately 2.61 GWhth, and cooling demand in the two schools is approximately 2.65 GWhth. In this scope, the techno-economic analysis (TEA) was conducted using the GEOPHIRES tool combined with the TOUGH2 reservoir simulator. The reservoir performance, including geothermal heat production capacity, was modeled by the reservoir simulator TOUGH2. Then, levelized cost of heat (LCOH) was calculated using GEOPHIRES version 3.0, which includes new features such as hourly heat load optimization and peak performance evaluation. Geothermal reservoir temperature was estimated as 90.5 degrees C at a total depth of 3.3 km by the regional average temperature gradient of 22.8 degrees C/km and validated by cation geothermometer calculations. Four production scenarios with two different well configurations and two different heat load profiles have been developed for well flow rates ranging between 3.1 kg/s and 9.3 kg/s. The LCOH of the district heating and cooling system was calculated between $95 and $210/MWh ($28/MMBtu to $62/MMBtu) for four different production scenarios. Typical natural gas prices for residential customers in Oklahoma have ranged from 9 to 19 $/MMBtu over the past decade, which indicates a challenge for deployment of such a GDH system.

deep direct-use↗

Effect of oxygen stoichiometry on the magnetization profiles and negative magnetization in LSMO thin films

The depth-dependent magnetization in thin film oxygen stoichiometric and oxygen-deficient La 0.7 Sr 0.3 MnO 3 is investigated by using polarized neutron reflectivity and DC bulk magnetometry. The polarized neutron reflectivity results reveal that the stoichiometric sample shows enhanced interfacial magnetization relative to the rest of the film. The oxygen-deficient sample exhibits a reduced average magnetization from the optimized recipe. Both films show regions of suppressed magnetization at the surface regardless of the growth pressure. The oxygen stoichiometric film does not show an interfacial dead layer, whereas the oxygen-deficient film exhibits a dead layer whose thickness changes with temperature. At a low applied field, we observe striking differences in the depth dependence of the magnetic ordering, with the oxygen-deficient film exhibiting exchange spring behavior, while the stoichiometric film shows a constant magnetization direction across the film. Furthermore, these results suggest that the incorporation of oxygen vacancies during growth leads to an accumulation of vacancies at the interface, which is enhanced at higher temperature due to increased oxygen mobility, creating a region of reduced magnetism that couples to the rest of the film. These results offer insight into the complex behavior and role of oxygen vacancies in the magnetism of these systems. Additionally, the study reveals further details of the negative magnetization in La 0.7 Sr 0.3 MnO 3 reported in previous studies, which are discussed here.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Actinium–DOTA coordination in water from hybrid ML/MM: Structure, free energies, and water-exchange pathways

Quantitative simulation of trivalent ƒ-block chelates in water remains challenging because bonded and non-bonded force-field models make different approximations for coordination structure, exchange dynamics, and ion–ligand interactions in highly charged systems. Here, we develop a hybrid machine-learning/molecular-mechanics (ML/MM) framework for Ac 3+ –DOTA in explicit solvent by training an E(3)-equivariant neural network potential (MACELES) on mechanically embedded QM/MM data for Ac aquo and Ac–DOTA species and coupling it to NAMD 2.14 with particle-mesh Ewald electrostatics. Nanosecond ML/MM trajectories remain numerically stable and preserve chelate integrity, yielding a compact DOTA inner shell with an inner-sphere water coordination number of CN Ac,O w ≈ 1.7 arising from a dynamic equilibrium between one- and two-water states (37.5% and 59.9% of frames; three waters 2.5%). A 5 ns potential of mean force shows two low-lying basins at CN Ac,O w ≈ 1 and CN Ac,O w ≈ 2. DFT end-state free energies are consistent with the ML/MM profile, and DFT minimum-energy paths provide a qualitative electronic-structure reference for the observed basin connectivity. State-resolved kinetics reveal picosecond water-exchange pathways that couple hydration changes to transient DOTA arm fluctuations, and training-set comparisons show that temperature-matched Ac–DOTA data optimize energy/force accuracy while more diverse solvated data improve charge prediction. Overall, the present hybrid ML/MM model provides a practical description of Ac 3+ –DOTA hydration thermodynamics and short-time exchange behavior in explicit water at MD-like cost.

Actinium↗

Uncertainty-Aware Machine Learning for Small-Angle X-ray Scattering Analysis in Autonomous Experimentation

Small-angle X-ray scattering (SAXS) is a powerful high-throughput characterization tool for probing nanoscale structure in native sample environments, providing real-time morphological information such as nanoparticle size and shape during synthesis. However, automated SAXS data analysis for extracting meaningful structural parameters is non-trivial and remains a bottleneck in closed-loop experimentation towards autonomous materials discovery, which demands fast, reliable, and uncertainty-aware data analysis. Here, we develop a machine-learning approach for automated SAXS analysis tailored to closed-loop nanoparticle synthesis. A Random Forest (RF) regression model is trained on 100,000 synthetic SAXS curves generated from polydisperse spherical nanoparticles with realistic background contributions. Using normalized one-dimensional SAXS intensity profiles as input, the RF model directly predicts nanoparticle radius, size polydispersity, and background parameters, while the ensemble standard deviation across trees provides built-in uncertainty quantification (UQ). On synthetic data, we show that combining fit-quality metrics (R 2 , MAE) with thresholds on prediction uncertainty reliably identifies accurate parameter estimates without access to ground truth. We then apply the trained model to 365 experimental SAXS profiles of citrate-reduced gold nanoparticles synthesized using an automated droplet-flow microreactor with in situ SAXS at a synchrotron beamline, classifying the results into high- and low-confidence subsets based on UQ metrics. Finally, we integrate RF-based SAXS analysis into a simulated closed-loop optimization campaign using Gaussian process Bayesian optimization to minimize nanoparticle polydispersity, benchmarking against conventional automated Levenberg–Marquardt fitting. The RF-guided campaign exhibits substantially faster convergence and lower relative opportunity cost (∼0.07 vs ∼0.3), demonstrating that uncertainty-aware machine-learning SAXS analysis significantly enhances the efficiency and robustness of autonomous nanomaterials synthesis workflows.

Bayesian optimization↗

Deterministic fabrication of highly reproducible monochromatic quantum emitters in hexagonal boron nitride

Quantum emitters in hexagonal boron nitride are important room temperature single-photon sources. However, conventional fabrication methods yield quantum emitters with dispersed and inconsistent spectral profiles, limiting their potential for practical quantum applications, which demand reproducible high quality single-photon sources. Here, we report the deterministic creation of highly reproducible monochromatic quantum emitters by applying carbon-ion implantation on freestanding hexagonal boron nitride flakes, while a carbon mask with suitable thickness was adapted to optimize the implantation results. Quantum emitters fabricated using this approach exhibited thermally limited monochromaticity, with an emission center wavelength of 590.7 ± 2.7 nm, a narrow full width at half maximum of 7.1 ± 1.7 nm, an emission rate of 1 MHz without optical engineering, and exceptional stability under ambient conditions. Density functional theory calculations and scanning transmission electron microscopy suggest that these emitters are comprised of boron centered carbon tetramers. This method provides a reliable single-photon source for optical quantum computing and potential future industry-scale applications.

Hua, Muchuan [Argonne National Laboratory (ANL), A↗

Scalable Techniques for Stochastic Power Flow Problems (Final Report)

The proposed research focuses on developing scalable algorithms for two-stage security-constrained OPF problems with AC power flow constraints, a class of problems complicated by (i) scale arising from a scenario representation; and (ii) the presence of nonlinearity, nonconvexity, and possibly second-stage discreteness or complementarity. Unfortunately, most existing solvers cannot contend with both challenges simultaneously; accordingly, the proposed research focuses on developing solution techniques that can both scale with the number of scenarios and contend with nonconvexity and second-stage complementarity. We consider three avenues for addressing such problems: (i) Variable sample-size SQP (VS-SQP) methods that combine sparse Quasi-Newton updates with a scalable variance-reduced stochastic gradient scheme for stochastic QP subproblems, allowing for contending with second-stage complementarity via regularization; (ii) Variable sample-size stochastic Interior-point (VS-sIP) schemes that propose a sampling-based regularized (to allow for contending with complementarity) interior-point schemes in which a Schur-complement technique is employed for decomposing the Newton direction computation step; (iii) Variable sample-size tractable ADMM (VS-tADMM) schemes combine variable sample-sizes with carefully designed techniques for resolving each of the nonconvex updates (by leveraging the QCQP structures). We intend to compare the three schemes using performance profiles in terms of solution quality, scalability, etc. and then select one scheme which will then be developed and further refined in Python for purposes of the GO competition.

42 ENGINEERING↗

Statistical inference of anomalous thermal transport with uncertainty quantification for interpretive 2D SOL models

The critical task of inferring anomalous cross-field transport coefficients is addressed in simulations of boundary plasmas with fluid models. A workflow for parameter inference in the UEDGE fluid code is developed using Bayesian optimization with parallelized sampling and integrated uncertainty quantification. In this workflow, transport coefficients are inferred by maximizing their posterior probability distribution, which is generally multidimensional and non-Gaussian. Uncertainty quantification is integrated throughout the optimization within the Bayesian framework that combines diagnostic uncertainties and model limitations. As a concrete example, we infer the anomalous electron thermal diffusivity $\chi_\perp$ from an interpretive 2D model describing electron heat transport in the conduction-limited region with radiative power loss. The workflow is first benchmarked against synthetic data and then tested on H-, L-, and I-mode discharges to match their midplane temperature and divertor heat flux profiles. We demonstrate that the workflow efficiently infers diffusivity and its associated uncertainty, generating 2D profiles that match 1D measurements. Future efforts will focus on incorporating more complicated fluid models and analyzing transport coefficients inferred from a large database of experimental results.

Bayesian optimization↗

Precision Kinematic Sunyaev--Zel'dovich Measurements Across Halo Mass and Redshift with DESI DR2 and ACT DR6: Part II. Bright Galaxy Survey and Emission-Line Galaxies

We present the first high-significance spectroscopic stacked kinetic Sunyaev-Zel'dovich (kSZ) measurements of circumgalactic gas profiles for both Bright Galaxy Survey (BGS) and Emission Line Galaxy (ELG) tracers, combining DESI Data Release 2 with ACT Data Release 6. Using reconstructed line-of-sight velocities from the DESI galaxies and high-resolution ACT temperature maps, we detect the kSZ signal at high significance, reaching signal-to-noise ratios of up to $\sim$9 for BGS and $\sim$7.5 for ELGs in optimal stellar-mass selections. Together with the LRG measurements presented in Paper I, these constitute the most significant kSZ detections from any spectroscopic survey to date. We perform the analysis in both real and harmonic space, obtaining consistent results. By splitting both tracers into stellar-mass bins, we study the scaling of the kSZ amplitude with galaxy properties. Combining the kSZ measurements with ACT Data Release 6 (DR6) CMB lensing maps enables a joint calibration of the galaxy-halo connection and the gas fractions of host halos. For the BGS galaxies, we observe low gas fractions around the virial radius relative to standard expectations, likely attributable to active galactic nuclei (AGN) activity. We find some evidence for higher-mass halos retaining a larger fraction of their baryons, consistent with more efficient feedback in lower-mass systems. For the ELG sample, dominated by blue, star-forming galaxies, we provide the first detection of the gas distribution in ELG host halos. The ELGs appear to exhibit relatively high gas fractions, which points to the possibility of weaker feedback (due to e.g. low AGN and supernova feedback activity) at their mass scale. Finally, we present generalized Navarro-Frenk-White (GNFW) fits to the harmonic-space measurements, providing a compact parametrization of gas profiles for forward modeling in large-scale structure analyses.

Hadzhiyska, B. [Cambridge U.; Cambridge U., Inst. ↗

Multimodal sensor fusion for real-time standoff estimation in directed energy deposition

In Laser Powder-based Direct Energy Deposition (LP-DED) systems, achieving consistency, precision and quality of produced parts requires tight control over printing parameters. One of the critical parameters is the standoff distance. Maintaining an optimal standoff height is crucial for achieving correct laser power density and powder catchment efficiency, as both laser and powder streams are focused at this distance. Here, this study introduces a novel approach using multimodal sensor fusion to predict standoff height in real-time. The proposed system integrates two low-profile, cost-effective sensors: an RGB coaxial camera and a high frequency and high dynamic range microphone. By utilizing a simple fully connected neural network, trained on a limited dataset, data fusion of these sensors allowed for the real-time prediction of the standoff height. The results demonstrate high resolution and accuracy of the predictions across multiple geometries and a wide range of standoff heights. This approach offers a simple, and cost-effective solution for real-time standoff height monitoring and lays the groundwork for future integration into commercial LP-DED systems.

42 ENGINEERING↗

Van der Waals Sandwich Structures for Surface-Enhanced Raman Scattering

Surface-enhanced Raman scattering (SERS) intensity of two-dimensional (2D) materials critically depends on the resonant conditions and factors such as the substrate interferences and molecule adsorption fluctuations, making comprehensive investigation, understanding, and optimization of 2D materials-assisted SERS challenging. Here, in this work, the wavelength-dependent SERS of van der Waals structures of 2D materials is systematically investigated, focusing on the intrinsic frequency-dependent Raman tensors by first-principles method while ruling out other extrinsic factors in experiments. Distinct enhancement profiles are found for different 2D materials, among which MoS2 and graphene exhibit remarkably strong and broadband enhancement effects. For stacked multilayers and heterostructures of 2D materials, the calculated SERS addresses the significance of the first contact monolayer effect. Based on the above theory, the van der Waals sandwich structures are proposed and investigated as the SERS substrates, verifying a further significantly enhanced SERS performance. This resonant first-principles study demonstrates a comprehensive and analytical way to explore and promote the SERS of van der Waals structures.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Taylor limit studies for local helicity injection plasma startup

Solenoid-free tokamak startup techniques can simplify the design and reduce the cost of tokamak-based fusion energy systems. The newly commissioned Pegasus-III spherical tokamak provides a dedicated platform for developing a scalable solenoid-free startup approach. Local helicity injection (LHI) is one promising technique being developed on Pegasus-III, which uses compact edge current sources to drive open field line current I inj that is redistributed via helicity-conserving instabilities to initiate tokamak plasmas. These instabilities relax the system toward a minimum energy state described by Taylor relaxation theory. This relaxation process imposes a global current limit for LHI plasmas, referred to as the Taylor limit I TL ⁠, which can dictate the plasma current I p evolution. Experiments on Pegasus and Pegasus-III show that increasing this limit leads to more effective utilization of the available helicity input and higher I p plasmas. Initial Pegasus-III experiments have verified the expected I TL $\varpropto$ ( I inj B T ) 1/2 scaling holds for B T and I inj up to 0.3 T on axis and 12 kA ⁠, respectively. Additionally, data from different injector arrays show that the width of the injector aperture directly alters I TL and can be leveraged for future injector design optimization. Throughout these scaling studies, discharges were overdriven at I p = I TL by providing excess helicity input. Intermittent bursts of n = 1 magnetic activity consistent with large-scale reconnection events occurred more often as the system was increasingly overdriven leading to a flattening of the λ = μ 0 J ∥ / |B| profile, where J ∥ is the parallel current density.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Sphingobium lignivorans sp. nov., isolated from river sediment downstream of a paper mill

Here, a bacterial isolate, B1D3A T , was isolated from river sediment collected from the Hiwassee River near Calhoun, TN, by enrichment culturing with a model 5–5' lignin dimer, dehydrodivanillate, as its sole carbon source. B1D3A T was also shown to utilize several model lignin-derived monomers and dimers as sole carbon sources in a variety of minimal media. Cells were Gram-stain-negative, aerobic, motile, rod-shaped and formed yellow/cream-coloured colonies on rich agar. Optimal growth occurred at 30°C, pH 7–8, and in the absence of NaCl. The major fatty acids of B1D3A T were C 18:1 ω7c and C 17:1 ω6c. The predominant hydroxy fatty acids were C 14: 0 2-OH and C 15:0 2-OH. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidyldimethylethanolamine and sphingoglycolipid. B1D3A T contained spermidine as the only major polyamine. The major isoprenoid quinone was Q-10 with minor amounts of Q-9 and Q-11. The genomic DNA G+C content of B1D3A T was 65.6mol%. Phylogenetic analyses based on 16S rRNA gene sequences and coding sequences of 49 core, universal genes defined by Clusters of Orthologous Groups gene families indicated that B1D3A T was a member of the genus Sphingobium. B1D3A T was most closely related to Sphingobium sp. SYK-6, with a 100% 16S rRNA gene sequence similarity. B1D3A T showed 78.1–89.9%average nucleotide identity and 19.5–22.2% digital DNA–DNA hybridization identity with other type strains from the genus Sphingobium. On the basis of phenotypic and genotypic properties and phylogenetic inference, strain B1D3A T should be classified as representing a novel species of the genus Sphingobium, for which the name Sphingobium lignivorans sp. nov. is proposed. The type strain is strain B1D3A T (ATCC TSD-279 T =DSM 111877 T ).

59 BASIC BIOLOGICAL SCIENCES↗