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At least 451 records · Page 25
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Structural insights into redox signal transduction mechanisms in the control of nitrogen fixation by the NifLA system

NifL is a conformationally dynamic flavoprotein responsible for regulating the activity of the σ 54 -dependent activator NifA to control the transcription of nitrogen fixation (nif) genes in response to intracellular oxygen, cellular energy, or nitrogen availability. The NifL-NifA two-component system is the master regulatory system for nitrogen fixation. NifL serves as a sensory protein, undergoing signal-dependent conformational changes that modulate its interaction with NifA, forming the NifL–NifA complex, which inhibits NifA activity in conditions unsuitable for nitrogen fixation. While NifL-NifA regulation is well understood, these conformationally flexible proteins have eluded previous attempts at structure determination. In work described here, we advance a structural model of the NifL dimer supported by a combination of scattering techniques and mass spectrometry (MS)-coupled structural analyses that report on the average structure in solution. Using a combination of small angle X-ray scattering-derived electron density maps and MS-coupled surface labeling, we investigate the conformational dynamics responsible for NifL oxygen and energy responses. Our results reveal conformational differences in the structure of NifL under reduced and oxidized conditions that provide the basis for a model for modulating NifLA complex formation in the regulation of nitrogen fixation in response to oxygen in the model diazotroph,Azotobacter vinelandii.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Heterologous synthesis of the complex homometallic cores of nitrogenase P- and M-clusters in Escherichia coli

Nitrogenase is an active target of heterologous expression because of its importance for areas related to agronomy, energy, and environment. One major hurdle for expressing an active Mo-nitrogenase in Escherichia coli is to generate the complex metalloclusters (P- and M-clusters) within this enzyme, which involves some highly unique bioinorganic chemistry/metalloenzyme biochemistry that is not generally dealt with in the heterologous expression of proteins via synthetic biology; in particular, the heterologous synthesis of the homometallic P-cluster ([Fe 8 S 7 ]) and M-cluster core (or L-cluster; [Fe 8 S 9 C]) on their respective protein scaffolds, which represents two crucial checkpoints along the biosynthetic pathway of a complete nitrogenase, has yet to be demonstrated by biochemical and spectroscopic analyses of purified metalloproteins. Here, we report the heterologous formation of a P-cluster-containing NifDK protein upon coexpression of Azotobacter vinelandii nifD, nifK, nifH, nifM, and nifZ genes, and that of an L-cluster-containing NifB protein upon coexpression of Methanosarcina acetivorans nifB, nifS, and nifU genes alongside the A. vinelandii fdxN gene, in E. coli. Our metal content, activity, EPR, and XAS/EXAFS data provide conclusive evidence for the successful synthesis of P- and L-clusters in a nondiazotrophic host, thereby highlighting the effectiveness of our metallocentric, divide-and-conquer approach that individually tackles the key events of nitrogenase biosynthesis prior to piecing them together into a complete pathway for the heterologous expression of nitrogenase. As such, this work paves the way for the transgenic expression of an active nitrogenase while providing an effective tool for further tackling the biosynthetic mechanism of this important metalloenzyme.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

Multi-Fidelity Bayesian Optimization with Gaussian Processes for Double Shell Inertial Confinement Fusion Target Design

Reliable, secure access to energy is a major focus for national security efforts. One potential route to such energy is through fusion reactions in inertial confinement fusion (ICF) experiments. Such experiments are carried out at facilities such as the National Ignition Facility (NIF) in Livermore, California, where high powered lasers are used to compress a DT fuel-containing target to the necessary high temperature, high pressure conditions. These experiments are limited in number, which creates a heavy dependence on high fidelity predictive physics simulations and analysis performed “pre shot,” or before the experiment occurs. Many of these simulations in higher dimensions (2D and 3D) are computationally expensive, so finding optimal simulation-based designs presents its own challenges. In this work, we present our multi-fidelity Bayesian optimization with Gaussian processes (GPs) for ICF double shell targets, where a 1D surrogate model is used to help find a 2D surrogate model, enabling us to find optimal targets in the higher fidelity (2D), while saving computational cost.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2021

High yield polar direct drive fusion neutron sources at the National Ignition Facility

Polar direct drive neutron source experiments were performed at the National Ignition Facility showing substantial improvement in total neutron yield and efficiency of conversion of laser energy to fusion output. Plastic capsules 3–4 mm in diameter were filled with 1.5 mg/cc of deuterium–tritium (DT) fuel and imploded with laser beam pointing and defocus designed to compensate for polar asymmetry introduced by the facility beam entrance angles. Radiation-hydrodynamics simulations were employed to optimize the multi-dimensional laser and target parameter space, within facility and target fabrication constraints. Ensembles of 1D simulations tuned to match the outputs of early shots in the series were used to design subsequent shots in the series. This allowed the later shots to be designed based on empirically motivated sensitivities to laser and target input parameters, while eliminating the need to explicitly model phenomena such as hydrodynamic instabilities and nonlinear laser–plasma interactions. Additionally, one experiment with a 3.0 mm diameter CH capsule produced 13.6 kJ (4.81 × 10 15 DT neutrons) from a laser input below the NIF optics damage threshold at 585 kJ, 328 TW. Two experiments with 4.0 mm capsules produced 31.3 and 33.6 kJ of fusion output (1.11 × 10 16 and 1.19 × 10 16 DT neutrons) with 1.10 MJ, 390 TW and 1.26 MJ, 425 TW of laser input, respectively.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2022

Design of a high-resolution Rayleigh-Taylor experiment with the Crystal Backlighter Imager on the National Ignition Facility

The Rayleigh-Taylor (RT) instability affects a vast range of High Energy Density (HED) length scales, spanning from supernova explosions (10 13 m) to inertial confinement fusion (10 -6 m). In inertial confinement fusion, the RT instability is known to induce mixing or turbulent transition, which in turn cools the hot spot and hinders ignition. The fine-scale features of the RT instability, which are difficult to image in HED physics, may help determine if the system is mixing or is transitioning to turbulence. Earlier diagnostics lacked the spatial and temporal resolution necessary to diagnose the dynamics that occur along the RT structure. A recently developed diagnostic, the Crystal Backlighter Imager (CBI), [1,2] can now produce an x-ray radiograph capable of resolving the fine-scale features expected in these RT unstable systems. This paper describes an experimental design that adapts a well-characterized National Ignition Facility (NIF) platform to accommodate the CBI diagnostic. Simulations and synthetic radiographs highlight the resolution capabilities of the CBI in comparison to previous diagnostics. Furthermore, the improved resolution of the system can provide new observations to study the RT instability's involvement in mixing and the transition to turbulence in the HED regime.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2022

The driving mode of shock-driven turbulence

Turbulence in the interstellar medium (ISM) is crucial in the process of star formation. Shocks produced by supernova explosions, jets, radiation from massive stars, or galactic spiral-arm dynamics are amongst the most common drivers of turbulence in the ISM. However, it is not fully understood how shocks drive turbulence, in particular whether shock driving is a more solenoidal (rotational, divergence-free) or a more compressive (potential, curl-free) mode of driving turbulence. The mode of turbulence driving has profound consequences for star formation, with compressive driving producing three times larger density dispersion, and an order of magnitude higher star formation rate than solenoidal driving. Here, we use hydrodynamical simulations of a shock inducing turbulent motions in a structured, multiphase medium. This is done in the context of a laser-induced shock, propagating into a foam material, in preparation for an experiment to be performed at the National Ignition Facility (NIF). Specifically, we analyse the density and velocity distributions in the shocked turbulent medium, and measure the turbulence driving parameter $b=(\sigma _{\rho /\langle \rho \rangle }^{2\Gamma }-1)^{1/2}(1-\sigma _{\rho /\langle \rho \rangle }^{-2})^{-1/2}\mathcal {M}^{-1}\Gamma ^{-1/2}$, with the density dispersion σρ/<ρ>, the turbulent Mach number $\mathcal {M}$, and the polytropic exponent Γ. Purely solenoidal and purely compressive driving correspond to b ~ 1/3 and b ~ 1, respectively. As a result, using simulations in which a shock is driven into a multiphase medium with structures of different sizes and Γ < 1, we find b ~ 1 for all cases, showing that shock-driven turbulence is consistent with strongly compressive driving.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

Lagrangian statistics of a shock-driven turbulent dynamo in decaying turbulence

Small-scale fluctuating magnetic fields of order nG are observed in supernova shocks and galaxy clusters, where its amplification is likely caused by the Biermann battery mechanism. However, these fields cannot be amplified further without the turbulent dynamo, which generates magnetic energy through the stretch-twist-fold (STF) mechanism. Thus, we present here novel 3D magnetohydrodynamic (MHD) simulations of a laser-driven shock propagating into a stratified, multiphase medium, to investigate the post-shock turbulent magnetic field amplification via the turbulent dynamo. The configuration used here is currently being tested in the shock tunnel at the National Ignition Facility (NIF). In order to probe the statistical properties of the post-shock turbulent region, we use 384 × 512 × 384 tracers to track its evolution through the Lagrangian framework, thus providing a high-fidelity analysis of the shocked medium. Our simulations indicate that the growth of the magnetic field, which accompanies the near-Saffman kinetic energy decay (E kin ∝ t -1.15 ) without turbulence driving, exhibits slightly different characteristics as compared to periodic box simulations. Seemingly no distinct phases exist in its evolution because the shock passage and time to observe the magnetic field amplification during the turbulence decay are very short (~0.3 of a turbulent turnover time). Yet, the growth rate is still consistent with those expected for compressive (curl-free) turbulence driving in subsonic, compressible turbulence. Phenomenological understanding of the dynamics of the magnetic and velocity fields are also elucidated via Lagrangian frequency spectra, which are consistent with the expected inertial range scalings in the Eulerian–Lagrangian bridge.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2021

Origin of the magnetic and orbital ordering in α-Sr 2 CrO 4

Motivated by recent experimental progress in transition metal oxides with the K 2 NiF 4 structure, in this study we investigate the magnetic and orbital ordering in α-Sr 2 CrO 4 . Using first principles calculations, first we derive a three-orbital Hubbard model, which reproduces the ab initio band structure near the Fermi level. The unique reverse splitting of t 2g orbitals in α-Sr 2 CrO 4 , with the 3d 2 electronic configuration for the Cr 4+ oxidation state, opens up the possibility of orbital ordering in this material. Using real-space Hartree-Fock for multi-orbital systems, we constructed the ground state phase diagram for the two dimensional compound α-Sr 2 CrO 4 . We found stable ferromagnetic, antiferromagnetic, antiferro-orbital, and staggered orbital stripe ordering in robust regions of the phase diagram. Furthermore, using the density matrix renormalization group method for two-leg ladders with the realistic hopping parameters of α-Sr 2 CrO 4 , we explore magnetic and orbital ordering for experimentally relevant interaction parameters. Again, we find a clear signature of antiferromagnetic spin ordering along with antiferro-orbital ordering at moderate to large Hubbard interaction strength. We also explore the orbital-resolved density of states with Lanczos, predicting insulating behavior for the compound α-Sr 2 CrO 4 , in agreement with experiments. Finally, an intuitive understanding of the results is provided based on a hierarchy between orbitals, with d xy driving the spin order, while electronic repulsion and the effective one dimensionality of the movement within the d xz and d yz orbitals driving the orbital order.

36 MATERIALS SCIENCE↗
DOE OSTI2020

Diagnostic signature of the compressibility of the inertial-confinement-fusion pusher

In this study, carbon shell areal density measurements from many types of inertial confinement fusion implosions at the National Ignition Facility (NIF) demonstrate that the final state of the outside portion of the shell is set primarily by capsule coast time, the coasting period between main laser shut off and peak fusion output. However, the fuel areal density does not correlate with the increasing carbon compression. While two-dimensional (2D) radiation-hydrodynamic simulations successfully capture the carbon compression, energy must be added to the simulated fuel-ice layer to reproduce fuel areal density measurements. The data presented demonstrates that the degradation mechanisms that reduce the compressibility of the fuel do not reduce the compressibility of the ablator.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2020

Foam-lined hohlraum, inertial confinement fusion experiments on the National Ignition Facility

Experiments on the National Ignition Facility (NIF) to study hohlraums lined with a 20-mg/cc 400-μm-thick Ta 2 O 5 aerogel at full scale (hohlraum diameter = 6.72 mm) are reported. Driven with a 1.6-MJ, 450-TW laser pulse, the performance of the foam liner is diagnosed using implosion hot-spot symmetry measurements of the high-density carbon (HDC) capsule and measurement of inner beam propagation through a thin-wall 8-μm Au window in the hohlraum. Results show an improved capsule performance due to laser energy deposition further inside the hohlraum, leading to a modest increase in x-ray drive and reduced preheat due to changes in the x-ray spectrum when the foam liner is included. In addition, the outer cone bubble uniformity is improved, but the predicted improvement in inner beam propagation to improve symmetry control is not realized for this foam thickness and density.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2025

Challenges and Gaps in the Development of Pulsed Power for Fusion Applications: A Preroadmapping Perspective From Industry, Academia, and National Laboratory Experts

Fusion energy meets the twenty-first century World Grand Challenge of sustainable, ubiquitous, and safer energy sources. However, harnessing the promise of fusion energy has proven elusive. The competing approaches to fusion power plant design include inertial confinement fusion, National Ignition Facility (ICF-NIF, Z machine, etc.,) magnetic confinement fusion (MCF-Tokamak, stellarators, etc.), and other approaches that show promise in small- (flow stabilized Z pinches) or large-scale applications. These approaches are being accelerated with private and public funding and seek to demonstrate the feasibility of different approaches to fusion-based power plants. Yet, how can the necessary pulsed power technologies for these disruptive technology bases be accelerated with no clear “Dominant Design?” Roadmapping holds the promise to identify and develop common critical pulsed power components for laboratory, prototype, and commercial fusion, and can accelerate the commercialization of fusion reactor designs. A preroadmapping Workshop on Pulsed Power for Fusion was held at the IEEE International Pulsed Power Conference in San Antonio, TX, USA, in June 2023. The workshop had 177 attendees. Here, the common elements for many of the ICF technologies vying for dominant design were identified. The advancement of these technologies through roadmapping will enhance commercial expectations that require their rapid and innovative development in the next five years, as well as the next five to ten years. The key technologies identified that underpin and limit the advancement of fusion power include pulsed power technologies such as energy storage, high-voltage switching, additive manufacturing, and modular pulsed power circuit topologies. In conclusion, they are the focus of our effort in the following roadmap scenario, which will delineate potential paths to technology development.

Curry, Randy D. [I-Pulse Group, Albuquerque, NM (U↗
DOE OSTI2023

Heterologous expression of a fully active Azotobacter vinelandii nitrogenase Fe protein in Escherichia coli

ABSTRACT The functional versatility of the Fe protein, the reductase component of nitrogenase, makes it an appealing target for heterologous expression, which could facilitate future biotechnological adaptations of nitrogenase-based production of valuable chemical commodities. Yet, the heterologous synthesis of a fully active Fe protein of Azotobacter vinelandii ( Av NifH) in Escherichia coli has proven to be a challenging task. Here, we report the successful synthesis of a fully active Av NifH protein upon co-expression of this protein with Av IscS/U and Av NifM in E. coli . Our metal, activity, electron paramagnetic resonance, and X-ray absorption spectroscopy/extended X-ray absorption fine structure (EXAFS) data demonstrate that the heterologously expressed Av NifH protein has a high [Fe 4 S 4 ] cluster content and is fully functional in nitrogenase catalysis and assembly. Moreover, our phylogenetic analyses and structural predictions suggest that Av NifM could serve as a chaperone and assist the maturation of a cluster-replete Av NifH protein. Given the crucial importance of the Fe protein for the functionality of nitrogenase, this work establishes an effective framework for developing a heterologous expression system of the complete, two-component nitrogenase system; additionally, it provides a useful tool for further exploring the intricate biosynthetic mechanism of this structurally unique and functionally important metalloenzyme. IMPORTANCE The heterologous expression of a fully active Azotobacter vinelandii Fe protein (AvNifH) has never been accomplished. Given the functional importance of this protein in nitrogenase catalysis and assembly, the successful expression of AvNifH in Escherichia coli as reported herein supplies a key element for the further development of heterologous expression systems that explore the catalytic versatility of the Fe protein, either on its own or as a key component of nitrogenase, for nitrogenase-based biotechnological applications in the future. Moreover, the “clean” genetic background of the heterologous expression host allows for an unambiguous assessment of the effect of certain nif-encoded protein factors, such as AvNifM described in this work, in the maturation of AvNifH, highlighting the utility of this heterologous expression system in further advancing our understanding of the complex biosynthetic mechanism of nitrogenase.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Draft Genome Sequences of Switchgrass Diazotrophs

We report the draft genome sequences of five native nitrogen-fixing bacteria associated with roots of switchgrass isolated from the Tallgrass Prairies of Oklahoma. Nitrogen-fixing genes, including the nif cluster, are conserved across the Klebsiella and Kosakonia strains.

Jones, Lauren B.↗
DOE OSTI2022

Verification and Validation of Two Hydrodynamic Methods for Simulations of High Energy Density Physics Problems

A 3D verification and validation suite of test problems is presented and used to evaluate hydrodynamic methods within a radiation hydrodynamics code, xRAGE. These test problems exercise different levels of complexity, building towards ICF problems which in addition to hydrodynamics also include three temperature plasma physics, thermal conduction, and radiation diffusion. Among the problems in the test suite are the Kidder ball problem, the Verney shell problem, and a 5-material compression problem, which exercise different purely hydrodynamic methods implemented within xRAGE. There is excellent agreement between 2D and 3D XRAGE simulation results and between the xRAGE results and the benchmark solutions. Two 3D ICF test problems are also presented, based on an OMEGA direct drive capsule experiment and on a NIF indirect drive capsule experiment. It is demonstrated that the newer unsplit hydrodynamic method in xRAGE produces more vorticity relative to the older default method. For the indirect drive capsule, the 3D simulations are in reasonable agreement with the experimental values of ion temperature and neutron production.

47 OTHER INSTRUMENTATION↗
DOE OSTI2024

Horizontal gene transfer of the Mer operon is associated with large effects on the transcriptome and increased tolerance to mercury in nitrogen-fixing bacteria

Abstract Background Mercury (Hg) is highly toxic and has the potential to cause severe health problems for humans and foraging animals when transported into edible plant parts. Soil rhizobia that form symbiosis with legumes may possess mechanisms to prevent heavy metal translocation from roots to shoots in plants by exporting metals from nodules or compartmentalizing metal ions inside nodules. Horizontal gene transfer has potential to confer immediate de novo adaptations to stress. We used comparative genomics of high quality de novo assemblies to identify structural differences in the genomes of nitrogen-fixing rhizobia that were isolated from a mercury (Hg) mine site that show high variation in their tolerance to Hg. Results Our analyses identified multiple structurally conserved merA homologs in the genomes of Sinorhizobium medicae and Rhizobium leguminosarum but only the strains that possessed a Mer operon exhibited 10-fold increased tolerance to Hg. RNAseq analysis revealed nearly all genes in the Mer operon were significantly up-regulated in response to Hg stress in free-living conditions and in nodules. In both free-living and nodule environments, we found the Hg-tolerant strains with a Mer operon exhibited the fewest number of differentially expressed genes (DEGs) in the genome, indicating a rapid and efficient detoxification of Hg from the cells that reduced general stress responses to the Hg-treatment. Expression changes in S. medicae while in bacteroids showed that both rhizobia strain and host-plant tolerance affected the number of DEGs. Aside from Mer operon genes, nif genes which are involved in nitrogenase activity in S. medicae showed significant up-regulation in the most Hg-tolerant strain while inside the most Hg-accumulating host-plant. Transfer of a plasmid containing the Mer operon from the most tolerant strain to low-tolerant strains resulted in an immediate increase in Hg tolerance, indicating that the Mer operon is able to confer hyper tolerance to Hg. Conclusions Mer operons have not been previously reported in nitrogen-fixing rhizobia. This study demonstrates a pivotal role of the Mer operon in effective mercury detoxification and hypertolerance in nitrogen-fixing rhizobia. This finding has major implications not only for soil bioremediation, but also host plants growing in mercury contaminated soils.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Enhanced laser-induced damage performance of all-glass metasurfaces for energetic pulsed laser applications

To fabricate optical components with surface layers compatible with high power laser applications that may operate as antireflective coatings, polarization rotators, or harness physical anisotropy for other uses, metasurfaces are becoming an appealing candidate. In this study, a large-beam (1.05 cm diameter) 351-nm laser-induced damage testing was done on an all-glass metasurface structure composed of cone-like features with a subwavelength spacing of adjacent features. These structures were fabricated on untreated fused silica glass and damage tested, as were structures that were fabricated on fused silica glass that experienced a preliminary etching process to remove the surface Beilby layer that is characteristic of polished fused silica. The laser-induced damage onset for structures on untreated fused silica glass was 19.3 J∙cm -2 , while the sample that saw an initial pretreatment etch exhibited an improved damage onset of 20.4 J∙cm -2 , only 6% short of the reference pretreated glass damage onset of 21.7 J∙cm -2 . For perspective, the National Ignition Facility (NIF) operational average fluence at this wavelength and pulse length is about 10 J/cm2. At a fluence of 25.5 J∙cm -2 , the reference (pretreated) fused silica initiated 5.2 damage sites per mm 2 , while the antireflective metasurface sample with a preliminary etching process treatment initiated 9.8 damage sites per mm 2 . In conclusion, these findings demonstrate that substrate-engraved metasurfaces are compatible with high energy and power laser applications, further broadening their application space.

36 MATERIALS SCIENCE↗
DOE OSTI2019

Modeling of Nonlocal Electron Conduction for Inertial Confinement Fusion

In this report Chenhall presents a new Monte Carlo (MC) transport method developed as part of his PhD thesis work funded via fellowship by Sandia National Laboratories. The model is used to simulate the electron thermal transport within inertial confinement fusion (ICF) type problems. The new model aims to improve upon the currently used implicit Schurtz, Nicolai, and Busquet (iSNB) method, in particular by using finite particle ranges in comparison to the exponential solution of a diffusion method and by improved higher order angular modeling. The new method is being developed using the 1D LILAC and 2D DRACO codes developed by the Rochester Laboratory for Laser Energetics. The model is compared to iSNB for several ICF type problems: Omega shot 60303 a shock timing experiment, Omega shot 68951 a cryo target implosion and a NIF phase plate polar direct drive design. Overall, the MC method performs at least as well as the iSNB method and appears to indicate a lower predicted preheat ahead of the shock fronts. However, the difference in overall results between iSNB and MC transport is small for the choice of test problems and further simulations will need to be run to fully understand the difference between the models.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗