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DOE OSTI2025

Engineering Polyketide Stereocenters with Ketoreductase Domain Exchanges

Polyketide synthases (PKSs) are versatile biosynthetic megasynthases capable of producing a diverse range of natural products with many applications, including in pharmaceuticals. The stereochemical precision of PKSs makes them a powerful tool for engineering tailored, unnatural polyketides; however, modifying the stereocenters of a PKS product while maintaining production levels remains a significant challenge. In this study, we systematically tested and evaluated strategies for ketoreductase (KR) domain exchanges, the domain responsible for setting stereocenters of polyketide products. After first optimizing the method for KR exchanges, we then performed 44 KR domain exchanges on three different PKSs to obtain high production of all four stereoisomers in vivo. By testing both one- and two-module PKS systems, we investigated how downstream modules process intermediates with altered stereochemistry and found that the configuration of the α-substituents was critical for gatekeeping by the ketosynthase (KS). To overcome this constraint, we investigated two different strategies for altering the KS domain, including introducing targeted mutations in the downstream KS, and exploring boundaries in exchanging the entire functional unit from the donor PKS. Both strategies successfully modified the KS stereocontrol with distinct trade-offs; the functional unit exchange resulted in higher titer improvements, though it was more likely to break the entire PKS. This study demonstrates a comprehensive approach to successfully engineering all four stereochemical configurations in multiple PKS systems, advancing our understanding of and ability to rationally modify polyketide stereochemistry through multiple engineering strategies.

Keiser, Leah S. [Joint BioEnergy Institute (JBEI),↗

DOE OSTI2024

Simulation of plasma and neutral transport in PISCES-RF using SOLPS-ITER

In this research, the fluid plasma transport code SOLPS-ITER is applied and validated against experimental data from the plasma interaction surface component experimental station (PISCES)-RF linear plasma device to establish a physics basis for plasma and neutral transport in its two magnetic field (B-field) geometry setups-(1)the cusp and (2) non-cusp or linear B-field. The main focus of this study is to understand (1) radial plasma transport (2) heat and particle loads on the upstream dump and downstream target plate, and (3) the physics of plasma-neutral interactions in PISCES-RF. The simulation setup adheres to typical PISCES-RF experimental conditions, with a 2D helicon power deposition profile as an input heating source. SOLPS-ITER simulations reproduce experimental conditions with the Bohm diffusion model for both B-field configurations of the PISCES-RF experiment. Major energy loss channels include neutral radiation and power deposited on the wall and dump plate, with only 1% of the input power reaching the target. The ionization front is well confined near the dump plate due to the heating and puffing regions. Additionally, SOLPS-ITER simulation results are also found to be in very good agreement with the particle-in-cell calculations using the code-PICOS++ which supports the validity of SOLPS in low collisionality regime.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2020

Development of a directly driven multi-shell platform: Laser drive energetics

Simulations predict that directly driven multi-shell targets can provide a robust alternative to conventional high-convergence implosion concepts by coupling two to three times more energy into the final igniting thermonuclear fuel assembly than indirect-drive concepts. The three-shell directly driven Revolver concept [K. Molvig, M. J. Schmitt, B. J. Albright, E.S. Dodd, N.M. Hoffman, G.H. McCall, and S.D. Ramsey, Phys. Rev. Lett. 116, 255003 (2016)] utilizes a design that maximizes laser energy conversion into inward kinetic energy of the outermost ablator shell (~9%) while minimizing the DT fuel convergence (~9) to reduce the mixing of material from the innermost shell into the fuel. Inherent in this design concept is the use of 192 narrow beams (with a 1/e laser beam-to-capsule diameter ratio of 0.33) from the National Ignition Facility laser pointed in a polar direct drive laser configuration. In this paper, we demonstrate that low average laser intensity at the capsule surface (≤300 TW/cm 2 ) limits the measured laser backscatter, indicating that a greater amount of laser energy is coupled into the target. Omega experiments have been performed to determine the coupling of laser energy to the outermost shell of a scaled Revolver target (i.e., the ablator shell) by measuring capsule implosion trajectories and scattered-light fractions for two different drive configurations. Comparisons of simulated shell trajectory and velocity profiles with experimental data obtained from self-emission images show good agreement and are consistent with measured scattered light data. Furthermore, the low levels of scattered light measured are consistent with post-shot simulation results that show high hydro-coupling efficiency. These results strengthen the case for using narrow beams at low intensity to drive large ablator capsules for future direct-drive, multi-shell ignition concepts.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2021

Visual Tool for Assessing Stability of DER Configurations on Three-Phase Radial Networks

Here, we present a method and tool for evaluating the placement of Distributed Energy Resources (DER) on distribution circuits in order to control voltages and power flows. Our previous work described Phasor-Based Control (PBC), a novel control framework where DERs inject real and reactive power to track voltage magnitude and phase angle targets. Here, we employ linearized power flow equations and integral controllers to develop a linear state space model for PBC acting on a three-phase unbalanced network. We use this model to evaluate whether a given inverter-based DER configuration admits a stable set of controller gains, which cannot be done by analyzing controllability nor by using the Lyapunov equation. Instead, we sample over a parameter space to identify a stable set of controller gains. Our stability analysis requires only a line impedance model and does not entail simulating the system or solving an optimization problem. We incorporate this assessment into a publicly available visualization tool and demonstrate three processes for evaluating many control configurations on the IEEE 123-node test feeder (123NF).

24 POWER TRANSMISSION AND DISTRIBUTION↗

DOE OSTI2020

High precision strike point control to support experiments in the DIII-D small angle slot divertor

Improvements in strike point control enabled tests with the new Small Angle Slot (SAS) divertor installed at DIII-D with precision as tight as ±1 mm, barring brief perturbations from ELMs. Aside from being narrower than previous baffle structures in DIII-D, simulations indicate that performance of the SAS divertor should be very sensitive to strike point position, making the improved strike point control essential for experiments with the SAS divertor. Improved control entails regulating more divertor geometry target locations than before and setting higher gain on the strike point target. This is achieved by tasking more poloidal field (PF) shaping coils with divertor topology control, fine tuning of the coil configuration and algorithm gains, and adding regulation of the power supply common rail. Here, the result is that although more variables are controlled, precision is better: high frequency jitter in the strike point position is lower on average compared to related discharges with standard divertor shape control.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2020

A modular apparatus for use in high-precision measurements of parity violation in polarized eV neutron transmission

We describe a modular apparatus for use in parity-violation measurements in epithermal neutron–nucleus resonances with high instantaneous neutron fluxes at the Manuel Lujan Jr. Neutron Scattering Center at Los Alamos National Laboratory. This apparatus is designed to conduct high-precision measurements of the parity-odd transmission asymmetry of longitudinally polarized neutrons through targets containing nuclei with p-wave neutron–nucleus resonances in the 0.1–10 eV energy regime and to accommodate a future search for time reversal violation in polarized neutron transmission through polarized nuclear targets. The apparatus consists of an adjustable neutron and gamma collimation system, a 3 He- 4 He ion chamber neutron flux monitor, two identical cryostats for target cooling, an adiabatic eV-neutron spin flipper, a near-unit efficiency 6 Li- 7 Li scintillation detector operated in current mode, a flexible CAEN data acquisition system, and a neutron spin filter based on spin-exchange optical pumping of 3 He gas. We describe the features of the apparatus design devoted to the suppression of systematic errors in parity-odd asymmetry measurements. We describe the configuration of the apparatus used to conduct a precision measurement of parity violation at the 0.7 eV p-wave resonance in 139 La which employs two identical 139 La targets, one to polarize the beam on the p-wave resonance using the weak interaction and one to analyze the polarization.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2021

Simulation of adiabatic quantum computing for molecular ground states

Quantum computation promises to provide substantial speedups in many practical applications with a particularly exciting one being the simulation of quantum many-body systems. Adiabatic state preparation (ASP) is one way that quantum computers could recreate and simulate the ground state of a physical system. In this paper, we explore a novel approach for classically simulating the time dynamics of ASP with high accuracy and with only modest computational resources via an adaptive sampling configuration interaction scheme for truncating the Hilbert space to only the most important determinants. We verify that this truncation introduces negligible error and use this new approach to simulate ASP for sets of small molecular systems and Hubbard models. Furthermore, we examine two approaches to speeding up ASP when performed on quantum hardware: (i) using the complete active space configuration interaction (CASCI) wave function instead of the Hartree–Fock initial state and (ii) a nonlinear interpolation between the initial and target Hamiltonians. We find that starting with a CASCI wave function with a limited active space yields substantial speedups for many of the systems examined, while nonlinear interpolation does not. In additional, we observe interesting trends in the minimum gap location (based on the initial state) as well as how state preparation time can depend on certain molecular properties, such as the number of valence electrons. Importantly, we find that the required state preparation times do not show an immediate exponential wall that would preclude an efficient run of ASP on actual hardware.

Kremenetski, Vladimir↗

DOE OSTI2024

Super-X and conventional divertor configurations in MAST-U ohmic L-mode; a comparison facilitated by interpretative modelling

Measurements are presented, alongside corresponding interpretative SOLPS-ITER simulations, of the first MAST-U experiments comparing ohmically heated L-mode fuelling scans in Conventional divertor (CD) and Super-X divertor (SXD) configurations. In experiment, at comparable outer mid-plane separatrix electron density, $n_{e,\textrm{sep,OMP}}$, the maximum lower outer target heat load was found to be a factor 16 $\,\pm\,7$ lower in SXD compared to CD. In simulation, a factor 26.8 reduction was found (slightly higher than the experimental range), suggesting an additional reduction in SXD compared to the factor 9.3 expected from geometric considerations alone. According to the simulations, this additional reduction in the SXD is due to a net radial transport of the energy remaining downstream of the $T_e = 5$ eV location. This energy is carried out of the critical (highest heat load) flux tube by deuterium atoms, demonstrating the importance of a longer legged divertor which provides space for this to occur. Importantly, in both simulation and experiment, the SXD has minimal impact on the upstream n e and T e profiles. Spectral inferences of detachment front movement in SXD compare well between simulation and experiment. In regions of high magnetic field gradient, the parallel movement of the front towards the X-point becomes less sensitive to increasing $n_{e,\textrm{sep,OMP}}$, in qualitative agreement with simplified models and previous predictive simulations. Additional aspects, regarding the target ion flux rollover, upstream separatrix temperature and drift effects, are also presented and discussed.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2026

Single pion production and pion propagation in A chilles

We extend the applicability of A chilles (A CHIcagoLand Lepton Event Simulator) by incorporating the single pion production mechanism in a fully exclusive fashion. The electroweak interaction vertex is modeled by combining the state-of-the-art dynamical coupled-channels approach with realistic hole spectral functions, which account for correlations in both the initial target state and the residual spectator system. Final-state interactions are treated using a semiclassical intranuclear cascade that leverages nuclear configurations to determine the correlated spatial distribution of protons and neutrons. The meson-baryon scattering amplitudes used in the cascade are computed within the dynamical coupled-channels framework, consistent with the electroweak vertex. To model pion absorption, we employ the optical potential approach of Oset and Salcedo [Nucl. Phys. A484, 557 (1988).]. As an alternative approach, we explicitly model the production and propagation of resonances which mediate pion-nucleon scattering and pion absorption. We validate our approach against pion-nucleon and pion-nucleus scattering data, and present comparisons with electron- and neutrino-nucleus measurements from e⁢4⁢𝜈, T2K, MINER⁢𝜈⁢A, and MicroBooNE.

Isaacson, Joshua [Michigan State Univ., East Lansi↗

DOE OSTI2026

Optimization of an Energy Tuning Assembly for High Explosives Detection

The Portable Isotopic Neutron Spectroscopy (PINS) system, employs neutron-induced gamma-ray spectroscopy and provides a nondestructive method for high explosives detection. In standard operation it uses Californium-252 as a neutron source. Operating PINS with a deuterium-tritium (DT) neutron generator has some advantages over Cf-252, including lifetime and ability to produce high-energy inelastic scattering gamma rays. However, current systems using DT neutron generators suffer from a high environmental background and reduced ability to induce neutron capture, reducing spectral quality and limiting nitrogen sensitivity. Here, this study presents the development of an energy-tuning assembly (ETA) designed to optimize the DT neutron energy spectrum to increase nitrogen reaction rates in a target, thereby improving high explosive detection capabilities. A metaheuristic optimization framework, MultiGNOWEE, coupled with MCNP, was employed to generate two ETA configurations: a single-objective ETA, which maximizes nitrogen capture reactions, and a multi-objective ETA, which balances neutron capture and inelastic scattering. Simulations demonstrated the optimized configurations achieved up to a 10-fold improvement in nitrogen capture rates compared to the bare configuration. Experimental validation was conducted using a DT neutron generator and a high-purity germanium (HPGe) detector. Two prototype ETAs were constructed and assessed on a melamine simulant. Measurements demonstrated improved nitrogen detection for both prototype ETA configurations when compared to the standard system.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2021

Exascale models of stellar explosions: Quintessential multi-physics simulation

The ExaStar project aims to deliver an efficient, versatile, and portable software ecosystem for multi-physics astrophysics simulations run on exascale machines. The code suite is a component-based multi-physics toolkit, built on the capabilities of current simulation codes (in particular Flash-X and Castro), and based on the massively parallel adaptive mesh refinement framework AMReX. It includes modules for hydrodynamics, advanced radiation transport, thermonuclear kinetics, and nuclear microphysics. The code will reach exascale efficiency by building upon current multi- and many-core packages integrated into an orchestration system that uses a combination of configuration tools, code translators, and a domain-specific asynchronous runtime to manage performance across a range of platform architectures. The target science includes multi-physics simulations of astrophysical explosions (such as supernovae and neutron star mergers) to understand the cosmic origin of the elements and the fundamental physics of matter and neutrinos under extreme conditions.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2021

HED Hydrodynamics in the Common Modeling Framework

Within the Common Modeling Framework (CMF), the HED Hydrodynamics Project has implemented a common methodology, or "Authority", for modeling high energy density (HED) experiments by extending development of the Eulerian Applications Project code Authority, "EAPA," to include relevant physics models, customization tools and templates, and in situ and post-processing capabilities. Additionally, several models for small-scale HED experiments were successfully added to the CMF and simulations reproduce the results of preexisting, benchmarked input decks. We expect use of the CMF to improve our effectiveness in developing predictive capabilities for experiments ranging from small-scale planar single-interface, single-shock to multi-interface, multi-shock configurations and up through multi-shell inertial confinement fusion (ICF) implosions. Additionally, this will strengthen our ability to design future targeted experiments. Using the CMF infrastructure and Authorities for HED modeling has three key impacts. First, it enables a version-controlled, pedigreed and archived base model for each experiment with tools that allow easy setup, execution and analysis of simulations to assess and/or expose sensitivities to various parameters. Second, having a common base set of inputs and physics definitions helps identify systematic differences between models in the codes and experimental data to support code validation, and build confidence in our predictive capabilities. Finally, designed to work in concert with multiple programs and projects including PEM, IC, OES, V&V and DSW, the CMF supports improved collaboration and integration through shared model definitions, data, simulations and results, enhancing the workflow required to underwrite the knowledge base and capabilities ultimately required for stockpile stewardship

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2021

Transient Efficiency Flexibility and Reliability Optimization of Coal-Fired Power Plants: Model-Predictive Control Library Development (Report)

This document pertains to the reporting requirements of DOE contract FE-0031767. The document covers the development of a model predictive control (MPC) library for implementing MPC for a general dynamic system. The library is implemented in a standardized manner in Matlab/Simulink, where core functions on model prediction, linearization and formulation and solution of a quadratic programming (QP) optimization problem is done in the core library - independent of the specific application. The user can provide the application-specific dynamic model in continuous and discrete time, to rapidly implement and test the MPC performance in a desktop simulation. The MPC optimization objective and constraints are also easily configured via an Excel file to allow iterative refinement as needed. Finally, the MPC library enables a rapid deployment to a target environment through auto C-code generation and containerization. The MPC library works seamlessly with the model based estimation (MBE) library to obtain the overall output feedback control solution. In this program, the reduced order model (ROM) of a coal-fired power plant (CFPP) is used to implement and test the MPC solution.

01 COAL, LIGNITE, AND PEAT↗

DOE OSTI2022

Precursor Analysis Report: Doppelpaymer Ransomware Attack on Petroleos Mexicanos (PEMEX) 2019

The DoppelPaymer Ransomware Attack on Petroleos Mexicanos (PEMEX) 2019 Precursor Analysis Report leverages publicly available information about the PEMEX cyber attack and catalogs anomalous observables for each technique employed in the attack. This analysis is based upon the methodology of the Cybersecurity for the Operational Technology Environment (CyOTE) program. The 2019 DoppelPaymer ransomware attack on PEMEX, Mexico’s nationalized petroleum corporation, highlights a unique threat that ransomware and cybercriminal extortion poses to Operational Technology (OT) environments in critical infrastructure. The incident began with an employee downloading commodity malware that allowed adversaries to gain initial access to PEMEX’s enterprise environment. After conducting privilege escalation, tool ingress, and data exfiltration, the adversaries deployed DoppelPaymer ransomware throughout the PEMEX enterprise environment, resulting in the company having to take dozens of systems offline for at least several days. Although PEMEX stated that their operations were not affected, the data exfiltrated from PEMEX was made available for download on DoppelPaymer’s leak site, as well as on other illicit criminal forums. This stolen data included not only company information, but also sensitive OT-specific configuration data. This incident showcases how cybercriminal exfiltration and posting of sensitive OT architecture documentation can pose security concerns for the targeted organization for years due to the long lifespan of OT assets and architectures. Researchers and analysts identified 18 unique techniques utilized during the attack with a total of 190 observables using MITRE ATT&CK® for Industrial Control Systems. The CyOTE program assesses observables accompanying techniques used prior to the triggering event to identify opportunities to detect malicious activity. If observables accompanying the attack techniques are perceived and investigated prior to the triggering event, earlier comprehension of malicious activity can take place. Fifteen of the identified techniques used during the DoppelPaymer ransomware attack were precursors to the triggering event. Analysis identified 163 observables associated with these precursor techniques, 34 of which were assessed to have an increased likelihood of being perceived in the 60 days preceding the triggering event. The response and comprehension time could have been reduced if the observables had been identified earlier. The information gathered in this report contributes to a library of observables tied to a repository of artifacts, data sources, and technique detection references for practitioners and developers to support the comprehension of indicators of attack. Asset owners and operators can use these products if they experience similar observables or to prepare for comparable scenarios.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

DOE OSTI2021

Ps and Qs: Quantization-Aware Pruning for Efficient Low Latency Neural Network Inference

Efficient machine learning implementations optimized for inference in hardware have wide-ranging benefits, depending on the application, from lower inference latency to higher data throughput and reduced energy consumption. Two popular techniques for reducing computation in neural networks are pruning, removing insignificant synapses, and quantization, reducing the precision of the calculations. In this work, we explore the interplay between pruning and quantization during the training of neural networks for ultra low latency applications targeting high energy physics use cases. Techniques developed for this study have potential applications across many other domains. We study various configurations of pruning during quantization-aware training, which we term quantization-aware pruning, and the effect of techniques like regularization, batch normalization, and different pruning schemes on performance, computational complexity, and information content metrics. We find that quantization-aware pruning yields more computationally efficient models than either pruning or quantization alone for our task. Further, quantization-aware pruning typically performs similar to or better in terms of computational efficiency compared to other neural architecture search techniques like Bayesian optimization. Surprisingly, while networks with different training configurations can have similar performance for the benchmark application, the information content in the network can vary significantly, affecting its generalizability.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2022

Use of a 360-Degree Underwater Camera to Characterize Artificial Reef and Fish Aggregating Effects around Marine Energy Devices

Marine energy devices must be attached to the seafloor by their foundations, pilings, or anchors, and will have other parts in the water column like the devices themselves, mooring lines, and power export cables running along the seafloor. The installation and presence of these artificial structures will create physical changes that can disrupt or create new habitats, and potentially alter the behavior of mobile organisms such as fish around a device by attracting them to these new artificial reefs and fish aggregating devices. In this study, we tested a new approach for monitoring fish activity around a marine energy device anchor: a 360-degree underwater camera to keep the target (a wave energy converter’s anchor) in the field of view of the camera. The camera was deployed in three configurations (hand-held, tripod, video lander) at sites with different hydrodynamics and underwater visibilities. The video lander was the best configuration: very stable, versatile, and easy to handle. The 360-degree field of view enabled observing and counting fishes, which were more abundant at dusk than dawn or noon, around the anchor. Despite remaining challenges, 360-degree cameras are useful tools for monitoring animal interactions with marine energy devices.

360-degree camera↗

DOE OSTI2020

Injectable and implantable cellular-scale electronic devices

Provided are implantable or surface mounted biomedical devices and related methods for interfacing with a target tissue. The devices have a substrate and device component supported by the substrate. The components of the device are specially configured and packaged to be ultra-thin and mechanically compliant. In particular, device thicknesses are less than 1 mm and have lateral dimensions between about 1 m and 10 mm, depending on the application. Delivery substrates may be incorporated to assist with device implantation and handling. The devices can be shaped to provide injection in a minimally invasive manner, thereby avoiding unnecessary tissue damage and providing a platform for long-term implantation for interfacing with biological tissue.

36 MATERIALS SCIENCE↗

DOE OSTI2023

System and method for member articulation

A system including a robot mean to move a member by using a first camera coupled to the robot, a second camera coupled to the robot, a control device configured to control position of the robot in order to minimize a pixel-wise distance between the member and a target based on alternating input from the first camera and the second camera.

Blakeslee, Brigid A.↗