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DOE OSTI2026

Cas3-Mediated Genome Reduction: Demonstration in Cupriavidus Necator H16 Improves Growth on Heterotrophic and Autotrophic Carbon Sources

Genome reduction is widely used to improve microbial bioprocessing hosts by reducing the burden of inessential physiology. Rationally identifying genomic regions that are dispensable or even detrimental to bioprocessing is challenged by our inability to map genome sequence to function across complex regulation and physiology. Thus, there is a need for tools that rapidly generate reduced genome strains with improved performance in process-relevant conditions. Here, we report a Cascade-Cas3-enabled method called TRIM3 that generates large deletions by targeting a randomly integrated transposon, enabling facile generation of a genome-reduced mutant library. Mutants with improved performance were isolated following growth-coupled selection and analyzed by long-read DNA sequencing to identify deletions in their genomes. We deploy this system iteratively in the industrial host Cupriavidus necator H16 on fructose and on formate. After two rounds of TRIM3, we isolate a strain containing a total reduction of 1.4 Mb (18.4% of the genome) that grows 25% faster in a bioreactor on fructose and a strain with a total reduction of 0.5 Mb (7.3% of the genome) that grows 14% faster on formate. This work demonstrates a method for random, iterative, growth-selectable genome reduction that represents a new avenue for large-scale genome modifications and the development of improved bioprocessing hosts.

09 BIOMASS FUELS↗

DOE OSTI2020

MBMS1.0: An Open-Source Code for Modeling and Simulation of Membrane-Based Dehumidification and Energy Recovery

Membrane-based dehumidification is currently being considered as a promising solution for the building application due to its low cost and very limited energy consumption. Developing a simple and efficient open-source code simulation tool is important for boosting the optimization and evaluation of such device in HVAC community. This paper reports a first-order physics based model which accounts for the fundamental heat and mass transfer of humid-air vapor at feed side to flow stream at permeate side. The current model comprises two membrane mass transfer submodels (i.e. microstructure model and performance map model); and it adopts a segment-by-segment methodology for discretizing heat and mass transfer governing equations. The model is capable of simulating both dehumidifiers and energy recovery ventilators with parallel-flow cross-flow, and counter-flow configurations. The model was validated with the measurements at appropriate device. The practices in dehumidification and energy recovery exchangers are also discussed. The model and open-source codes are expected to become a solid fundament for developing a more comprehensive and accurate membrane-based dehumidification in the future.

Gao, Zhiming↗

DOE OSTI2022

A sensitive and specific genetically-encoded potassium ion biosensor for in vivo applications across the tree of life

Potassium ion (K + ) plays a critical role as an essential electrolyte in all biological systems. Genetically-encoded fluorescent K + biosensors are promising tools to further improve our understanding of K + -dependent processes under normal and pathological conditions. Here, we report the crystal structure of a previously reported genetically-encoded fluorescent K + biosensor, GINKO1, in the K + -bound state. Using structure-guided optimization and directed evolution, we have engineered an improved K + biosensor, designated GINKO2, with higher sensitivity and specificity. We have demonstrated the utility of GINKO2 for in vivo detection and imaging of K + dynamics in multiple model organisms, including bacteria, plants, and mice.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Predictive Radiation Oncology – A New NCI–DOE Scientific Space and Community

With a widely attended virtual kickoff event on January 29, 2021, the National Cancer Institute (NCI) and the Department of Energy (DOE) launched a series of 4 interactive, interdisciplinary workshops—and a final concluding “World Café” on March 29, 2021—focused on advancing computational approaches for predictive oncology in the clinical and research domains of radiation oncology. These events reflect 3,870 human hours of virtual engagement with representation from 8 DOE national laboratories and the Frederick National Laboratory for Cancer Research (FNL), 4 research institutes, 5 cancer centers, 17 medical schools and teaching hospitals, 5 companies, 5 federal agencies, 3 research centers, and 27 universities. Here we summarize the workshops by first describing the background for the workshops. Participants identified twelve key questions—and collaborative parallel ideas—as the focus of work going forward to advance the field. These were then used to define short-term and longer-term “Blue Sky” goals. In addition, the group determined key success factors for predictive oncology in the context of radiation oncology, if not the future of all of medicine. These are: cross-discipline collaboration, targeted talent development, development of mechanistic mathematical and computational models and tools, and access to high-quality multiscale data that bridges mechanisms to phenotype. The workshop participants reported feeling energized and highly motivated to pursue next steps together to address the unmet needs in radiation oncology specifically and in cancer research generally and that NCI and DOE project goals align at the convergence of radiation therapy and advanced computing.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

DOE OSTI2020

Proceedings of RIKEN BNL Research Center Workshop: Jet Observables at the Electron-Ion Collider (Volume 136) [Slides]

As the realization of an Electron Ion Collider (EIC) moves forward, efforts from the nuclear physics community continue to grow. In addition to the ongoing detector R&D efforts, plans for novel analysis topics must be demonstrated to aid in the detector designs, so that we can maximize the physics output of the EIC. This relies on input from both the experimental and theory communities. The aim of this workshop is to gather experts as well as those with a developing interest in the EIC so that theorists and experimentalists with experience measuring jets in a variety of hadronic collision systems can discuss the possible advantages and challenges of making measurements of jets in e+p and for the first time ever jets in e+A collisions at the EIC. In the time since the EIC white paper was written in 2011, there has been a growing recognition that jet observables could be a powerful probe of many of the physics topics which will be addressed by the EIC. Recent years have seen a multitude of both theoretical and experimental papers exploring the utility of jets for topics as diverse as determining the hadronic structure of photons, studying the 3D structure of the nucleon, and characterizing the properties of the matter found in nuclei. The aim of this workshop is to provide a forum for both theorists and experimentalists to discuss the possible advantages and challenges of jet measurements in e+p and e+A collisions at the EIC, learn about the status of necessary simulation tools, consider requirements on detector performance, and propose new ideas for jet observables and measurements. This proceedings report is a compilation of slides from the presentations.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE OSTI2021

Massively Parallel Capability in Sierra/SD for Simulation Vibration with Piezoelectrics

Sierra/SD is an engineering structural dynamics code that provides Sandia and other customers a tool to model structural and acoustic physics on large complex physical systems using massively parallel processing. This report provides a detailed overview on Sierra/SD’s most recent physics package: coupled electro-mechanical physics. This capability uses the finite element method to model coupled electro-mechanical physics exhibited by piezoelectric materials. This report provides an applications overview, theory overview, and verification examples demonstrating the electro-mechanical physics modeling capabilities of Sierra/SD.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2021

SWIG+Fortran User Manual

This report explains the detailed capabilities, usage, and implementation of the Fortran target language extension to the SWIG tool. The SWIG+Fortran extension is used to generate Fortran-2003 bindings to existing C and C++ library codes.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2022

High Flux Isotope Reactor Low Enriched Uranium U-10Mo Fuel Design Parameters

Activities to convert the HFIR from HEU to LEU are ongoing as part of the US Department of Energy (DOE) National Nuclear Security Administration (NNSA) nuclear nonproliferation mission. Design activities to study the conversion of HFIR from HEU to LEU fuel explored different fuel design features and shapes with a uranium-molybdenum (U-10Mo) monolithic alloy fuel. This high-density alloy contains 90 wt % uranium and 10 wt % molybdenum and has a uranium density of 15.318gU/cm 3 . The goal of these studies is to generate several candidate HFIR LEU fuel designs of varying fuel fabrication complexity that meet the current HEU performance metrics and safety requirements. Recent advancements in modeling and simulation tools and design methods enabled a thorough analysis of the available design space with U-10Mo fuel. A surrogate model used this analysis as training data to quickly determine the performance of a design given specific design parameters. An optimization module used this surrogate model to quickly search this multidimensional search space given specific desired performance characteristics. This approach was made possible by the large available design space with U-10Mo fuel. Shift, a Monte Carlo tool optimized for high-performance computing (HPC) architectures, was used for faster calculation and better data management for reactor physics simulations. Once most of these design studies were complete, a new suite called the Python HFIR Analysis and Measurement Engine (PHAME) was developed to connect all fuel design analysis steps, making design studies more efficient and reproducible. The post-processing capabilities of these new tools are leveraged for the information provided herein. Leveraging these tools, several candidate fuel designs were selected with varying levels of feature complexity and reactor performance. This report provides design feature details for four selected HFIR LEU U-10Mo fuel designs and their corresponding performance and safety metrics. Nominal best-estimate design parameters and irradiation conditions, including fission rate densities, power densities, heat fluxes, and cumulative fission densities, are provided. Simulations show that the high uranium density of U-10Mo fuel provides a large potential design space that enables various LEU designs to meet HEU core performance metrics and safety requirements with a power increase from 85 MW (HEU) to 95 MW or 100 MW (LEU).

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

DOE OSTI2022

DOE COVID-19 Data Curation Effort: Overview of Initial Data Collection Coverage (March - June 2020)

During the COVID-19 pandemic of 2020, major case reporting outlets quickly coalesced around two or three primary vendors. Johns Hopkins University and The New York Times were among the more prominent, and all were of great value to the nation, particularly during the uncertain early stages of the pandemic. They primarily focused on three major attributes: number of new cases, deaths, and recovery, but only at the state level. Recognizing that many states were reporting very detailed data sets (e.g., hospital beds) at a count level or finer, the ORNL Pandemic Modeling team embarked on a major data curation effort from March to June 2020 for the purpose of capturing this wealth of detailed data. The challenge of curating this data was daunting. The number of attributes reported by the states grew on almost on a weekly basis. States were routinely shifting their web tool strategies away from easily parsable HTML-based formatting to new Tableau and ArcGIS content. This growth in the sheer number of attributes combined with the unpredictable shifts in data format meant an aggressive and agile combination of automated scripting and manual scraping was required to capture new daily streams. To keep up, the team had to scale up staff and widen its approach for capture and storage. The DOE COVID-19 data collection effort resulted in over 11 million data points being collected, covering over 13,000 unique geographies and over 2,000 unique attributes that spanned predominantly from early March through the end of June 2020.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

DOE OSTI2022

Development of self-sensing materials for extreme environments based on metamaterial concept and additive manufacturing

Structural health monitoring of an engineered component in a harsh environment is critical for multiple DOE missions including nuclear fuel cycle, subsurface energy production/storage, and energy conversion. Supported by a seeding Laboratory Directed Research & Development (LDRD) project, we have explored a new concept for structural health monitoring by introducing a self-sensing capability into structural components. The concept is based on two recent technological advances: metamaterials and additive manufacturing. A self-sensing capability can be engineered by embedding a metastructure, for example, a sheet of electromagnetic resonators, either metallic or dielectric, into a material component. This embedment can now be realized using 3-D printing. The precise geometry of the embedded metastructure determines how the material interacts with an incident electromagnetic wave. Any change in the structure of the material (e.g., straining, degradation, etc.) would inevitably perturbate the embedded metastructures or metasurface array and therefore alter the electromagnetic response of the material, thus resulting in a frequency shift of a reflection spectrum that can be detected passively and remotely. This new sensing approach eliminates complicated environmental shielding, in-situ power supply, and wire routing that are generally required by the existing active-circuit-based sensors. The work documented in this report has preliminarily demonstrated the feasibility of the proposed concept. The work has established the needed simulation tools and experimental capabilities for future studies.

36 MATERIALS SCIENCE↗

DOE OSTI2024

Development of the ARM Lagrangian Large-Scale Forcing Data (ARMLAGTRAJ) Value-Added Product Based on the lagtraj Framework

The Atmospheric Radiation Measurement (ARM) large-scale forcing data developed based on the constrained variational analysis (VARANAL) value-added product (VAP) (Zhang and Lin 1997, Zhang et al. 2001, Xie et al. 2004, Tang et al. 2019) has been widely used for single-column models (SCMs), cloud-resolving models (CRMs), and large-eddy simulation models (LESs) to understand and improve physical processes in models. Recently, the U.S. Department of Energy (DOE) ARM user facility conducted several major field campaigns using ship-based moving observational platforms. For example, the Marine ARM GPCI Investigation of Clouds (MAGIC) field campaign focused on the role of subtropical marine-boundary layer (MBL) clouds, and the Multidisciplinary Drifting Observatory for the Study of Arctic Climate (MOSAiC) field campaign aimed to improve understanding of the coupled climate systems in the Arctic. Observations from moving platforms are critical to provide a comprehensive characterization of coupled-system processes associated with all stages of the cloud and/or sea-ice life cycle. Traditional ARM large-scale forcing data have been developed at fixed locations. They need to be extended to include these moving platforms to address data needs for ship-based field campaigns or to support LES modeling in a Lagrangian framework. With these considerations in mind, we develop ARM-type Lagrangian large-scale forcing data sets based on the lagtraj framework (Boeing et al. 2020) with notable enhancements in generating forcings that are more suitable for ARM field campaigns. The lagtraj is a novel tool that generates forcings for LES and SCM simulation in both Lagrangian and Eulerian perspective. This technical report focuses on the major changes we performed on the lagtraj algorithm and provides an overview of the ARM Lagrangian Large-Scale Forcing Data (ARMLAGTRAJ) value-added products.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

RePED 250: Manufacturing and Market Analysis of High-Temperature Alternators

The novel repetitive pulsed electric drill 250 (RePED 250) has the potential to greatly lower the costs and drilling times of geothermal projects. This tool discharges electric pulses through hard rock formations, shattering the rock in tension and allowing it to be quickly removed. One hurdle in bringing this technology to market is the RePED 250 downhole alternator. This component is essential for supplying power to the electronic drilling tool. There are currently no downhole tools on the market that meet the RePED 250 alternator's high temperature and power requirements. This report focuses on the path to commercialization for this novel alternator technology being developed as part of the RePED 250 project. One aim of this work is to identify the geothermal market size for the RePED 250 alternator, as well as other potential markets for this technology outside of geothermal. The geothermal market is very small, with only approximately 13 wells drilled in the United States each year. The worldwide market is several times this size and growing each year. The ability of the RePED 250 technology to drastically reduce the cost of geothermal projects may also lead to an increase in this market size. Technology developed for the high-temperature, high-power RePED 250 alternator can also be used to create high-temperature and high-power motors. These motors and alternators will have potential applications in oil and gas drilling, a $300 billion dollar industry in the United States alone, as well as in more distant industries such as aircraft, weapon systems, space exploration, and electric vehicles. Other aspects of the RePED 250 alternator's path to commercialization are also analyzed, including the supply chain for production materials and potential manufacturing methods. The supply chain and manufacturing practices for low-temperature motors and alternators are well established and require relatively minor changes for the high-temperature and high-power RePED 250 alternator. Sourcing for high-temperature materials has been identified, as well as potential supply chain risks. These most notably include electrical steel and high-temperature samarium cobalt (SmCo) magnets. Overall, these risks are not expected to be significant at the likely manufacturing scale required for the RePED 250.

15 GEOTHERMAL ENERGY↗

DOE OSTI2024

Low Precision and Efficient Programming Languages for Sustainable AI: Final Report for the Summer Project of 2024

This document contains all relevant material generated during the authors' summer internship at NREL in 2024. This report shows how to improve energy efficiency of a few code samples by using low-precision data types combined with mixed-precision algorithms. The main applications considered here are (i) linear system solvers using mixed precision, and (ii) neural networks using mixed precision. This report also discusses how programming languages affect energy consumption of algorithms, energy metrics for a code and tools, and the available current software and hardware infrastructure.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2025

PV Fleet Performance Data Initiative Final Technical Report (FTR)

Improved analysis and reporting of photovoltaic (PV) field performance increases the certainty of owners and financiers that systems will perform as expected. Advanced module technologies (e.g., PERC, HJT, and bifacial) introduce new degradation mechanisms and performance characteristics. This project will leverage data from the ever-increasing PV fleet to develop models and understanding of the field performance of existing and new technologies. Please see our list of public reports at https://www.nrel.gov/pv/fleet-performance-data-initiative.html. Objective 1: Support the global PV industry with scalable, robust data analysis tools that reduce the uncertainty of PV system performance and loss calculation. Objective 2: Reduce perceived risk arising from degradation rate, soiling loss, and system availability by publishing detailed statistics on U.S. fleet performance. Objective 3: Highlight factors leading to system underperformance including module type, climate, mounting configuration, etc. Objective 4: Enable continued high system performance in modern PV systems, as turnover and advances in technology bring new suppliers and high-efficiency modules into the market.

14 SOLAR ENERGY↗

DOE OSTI2025

XFEM Development for Modeling Crack Growth in Prototypical Welded Components

Nuclear power plant components are subjected to harsh operating environments that can lead to multiple degradation mechanisms in which fracture can play a prominent role. Predicting crack growth is important for assessing the integrity of welded components. The extended finite element method (XFEM) is an important tool for modeling such crack growth, and XFEM capabilities have been developed within the MOOSE framework. This report documents work in the MOOSE XFEM module to model fractures in three-dimensional representations of components using a topologically two-dimensional mesh to define cutting planes. Crack growth algorithms have been implemented to evolve the cutting mesh based on equations for stress corrosion cracking. Additionally, several usability and robustness improvements have been developed to enable three-dimensional fracture simulations. The cutting algorithms were demonstrated on a three-dimensional model of a prototypical reactor component undergoing stress corrosion cracking driven by idealized weld residual stresses. This is an incremental step toward using this capability to model more complex components with residual stresses computed through welding process simulations.

42 - ENGINEERING↗

DOE OSTI2020

Simplified Performance Rating Method - Review of Existing Tools, Rulesets, and Programs. Literature and technical review

The Performance Rating Method (PRM) in ASHRAE Standard 90.1 (ASHRAE 2016) is a simulation ruleset for establishing minimum code compliance and for rating a building’s beyond-code applications. Building energy modeling (BEM) to comply with the PRM is often expensive and time consuming due to the complexity of code requirements. The goal of this project is to develop and codify a simplified PRM (S-PRM) approach for commercial buildings that will expand the use of BEM for small or simple buildings by defining a low-cost, simplified approach for creating robust and detailed models. This report summarizes a review of (i) the more commonly used existing codes, (ii) incentive programs, and (iii) the existing simplified energy modeling tools to identify which requirements are good candidates for simplification.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

DOE OSTI2021

Community-Driven Methods for Open and Reproducible Software Tools for Analyzing Datasets from Atom Probe Microscopy

Atom probe tomography, and related methods, probe the three-dimensional architecture of a material. The software tools that microscopists use, and how these tools are connected into workflows, makes a substantial contribution to the accuracy and precision of such a material characterization experiment. Typically, we adapt methods from other communities like mathematics, data science, computational geometry, artificial intelligence, or scientific computing. We also realize that improving on research data management is a challenge when it comes to align with the FAIR data stewardship principles. Faced with this global challenge, we are convinced that collaborating is useful. Here, we report the results and challenges with an inter-laboratory call for developing test cases for several types of atom probe software tools. The results support why defining detailed recipes of software workflows and sharing these recipes is necessary and rewarding: Open source tools and (meta)data exchange can help to make our day-to-day data processing tasks become more efficient, the training of new users and knowledge transfer become easier, and assist us with automated quantification of uncertainties to gain access to substantiated results.

36 MATERIALS SCIENCE↗

DOE OSTI2026

New Report Highlights LAMP's Role as a Robust and Reliable System for Wave Energy Converter Testing

Harnessing the power of waves requires more than just putting devices in the ocean - it takes tools that can refine and accelerate innovation before the first deployment. That's where NLR's largeamplitude motion platform, or LAMP, comes in. LAMP is a six-degree-of-freedom motion system designed to replicate the response of a wave energy converter (WEC) device in realistic ocean conditions. By letting researchers evaluate WEC performance in a safe, controlled lab environment before moving offshore, LAMP helps accelerate innovation while reducing risk. An NLR report, titled Initial Characterization of the NLR LargeAmplitude Motion Platform (https://www.nrel.gov/docs/fy26osti/93733.pdf), provides a deeper understanding of LAMP's capabilities and also lays the groundwork for future advancements in WEC testing methodologies. Researchers studied LAMP's amplitude and frequency limits across different payloads and collected data from 16 test profiles. Testing demonstrated that platform accuracy remained consistent across all payloads evaluated; researchers expect similar accuracy up to LAMP's 10,000-kilogram capacity limit. The measured position limits for single degrees of freedom experienced by WECs, including surge, sway, heave, roll, pitch, and yaw, also exceeded the original manufacturer specifications, providing new insight into the true boundaries of the system.

16 TIDAL AND WAVE POWER↗