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DOE OSTI2025

Bioremediation of Chlorinated Volatile Organic Compounds: DOE Experiences and Lessons Learned

From the mid-1980s to the present, the Department of Energy (DOE) has developed, tested, and deployed diverse bioremediation strategies for chlorinated volatile organic compounds (cVOCs). A systematic review of these projects after decades of activity provides an opportunity to identify crosscutting themes and lessons learned. The knowledge provided by a DOE bioremediation retrospective represents a resource to support current and future bioremediation operations, and future decisions related to cVOC bioremediation. This systematic review examined the design, objectives, performance and outcomes for remediation projects at DOE sites including Savannah River, Hanford, Idaho, Mound and Pinellas. The results were used to identify emergent themes to provide actionable insights. The bioremediation retrospective technical team first developed standardized criteria to support the systematic review. Then, the evaluation was performed using a sequential process that was informed by local technical experts who identified and provided the structured information that served as the basis for the evaluation. The participation of these experts was invaluable to the effort. Importantly, DOE cVOC bioremediation efforts were implemented based on the foundational knowledge developed by U.S. Department of Defense (DoD) strategic and applied environmental technology development and certification programs, as well as technical, policy and regulatory guidance from the U.S. Environmental Protection Agency (EPA), Interstate Technology and Regulatory Council (ITRC), U.S. Geological Survey (USGS), industry, and universities. To maximize the value of the DOE cVOC bioremediation retrospective, the systematic review strategy focused on identifying important DOE-specific experiences, trends and lessons learned that would extend the knowledge available from these other key entities.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2025

Optimize the Autonomous Sensor Fish Device for Understanding Interactions of Aquatic Animals with Marine and Hydrokinetic and Hydro Systems (CRADA 476) Final Report

This project at the Pacific Northwest National Laboratory (PNNL) enhances our understanding of how aquatic life interacts with marine renewable energy (MRE) and hydropower systems through the development and testing of advanced sensor technology. The Marine Sensor Fish (MSF) and its smaller variants, the Sensor Fish Mini (SF Mini) and Flexible Sensor Fish (FSF), measure critical environmental stressors, such as shear forces, pressure changes, and strike impacts, that are essential for assessing the risks posed by energy devices, including tidal turbines, hydropower installations, and other MRE infrastructure. Rigorous field testing has shown that these tools are effective in capturing detailed data on turbulence, pressure variations, strike impacts, and other stressors near these devices, providing valuable insights into the conditions faced by aquatic species. Economically, these tools offer renewable energy developers a practical solution for streamlining environmental assessments and ensuring regulatory compliance, ultimately reducing costs associated with evaluating and mitigating ecological impacts. This research also benefits the public by promoting the growth of renewable energy sources that protect aquatic ecosystems, advancing both sustainable energy production and environmental stewardship.

13 HYDRO ENERGY↗

DOE OSTI2026

Wyoming CarbonSAFE Phase III: Site Characterization and Permitting Commercial-Scale Carbon Storage Complex Feasibility Study at Dry Fork Station, Wyoming

This report presents the findings of the technical and non-technical site characterization and permitting activities (“Phase III”) conducted under the Wyoming CarbonSAFE: Accelerating CCUS Commercialization and Deployment at Dry Fork Power Station (DFS) and the Wyoming Integrated Test Center project (“Wyoming CarbonSAFE”). Wyoming CarbonSAFE is part of the U.S. Department of Energy’s (DOE) National Energy Technology Laboratory (NETL) Carbon Storage Assurance Facility Enterprise (“CarbonSAFE”) Initiative. The results of Phase III demonstrate that the Wyoming CarbonSAFE project - referred to as the Northern Powder River Basin Carbon Sequestration Hub (NPRB-CSH) - meets the technical, regulatory, and commercial feasibility requirements necessary to advance toward commercial development and construction. The activities completed under this project Phase make the NPRB-CSH one of the region’s most commercially ready carbon storage sites. Completion of this Phase included the finalization of all site surface and subsurface characterization activities, completion and testing of two Class VI standard wells, 10 draft Class VI permits-to construct to address the future needs of a storage complex, finalized NEPA assessments, transportation and capture FEED studies, and a full commercialization strategy with economic modeling, operation and site closure strategies. The NPRB-CSH meets all requirements to progress to a CarbonSAFE Phase IV program or advance to full commercial operations under the development of a business partner.

01 COAL, LIGNITE, AND PEAT↗

DOE OSTI2022

Low Temperature Combustion Exploration with Negative Valve Overlap

Progressively stringent emission regulations and increasing regulatory demands on fuel economy have led to advanced combustion development. Low temperature combustion (LTC), specifically homogenous charge compression ignition (HCCI), is a promising technology for reducing exhaust emissions and improving efficiency. However, its operating range is limited to low load without boosting and EGR, due to low volumetric efficiency and high pressure rise rates. In addition, effectively controlling the combustion phasing is another challenge in realizing the associated combustion gains. In this work, advanced valve control mechanisms known as continuously variable valve duration (CVVD) and continuously variable valve timing (CVVT) were used for both intake and exhaust valvetrains to enable negative valve overlap (NVO) for trapping hot exhaust residuals and to promote multipoint simultaneous ignition. Heat release phasing was controlled by varying the fueling scheme and by adjusting the amount of NVO. Parametric studies on valve timing and duration, fueling strategy, lambda, spark assist, etc., were carried out first. Afterwards the LTC strategy was proposed and then LTC operation was explored at different engine speeds. Various approaches for extending load limits were summarized and discussed. Finally, combustion performance was compared to that of spark ignition combustion, demonstrating the combustion gains of LTC.

02 PETROLEUM↗

NASA NTRS2017

Advantage of Animal Models with Metabolic Flexibility for Space Research Beyond Low Earth Orbit

As the world's space agencies and commercial entities continue to expand beyond Low Earth Orbit (LEO), novel approaches to carry out biomedical experiments with animals are required to address the challenge of adaptation to space flight and new planetary environments. The extended time and distance of space travel along with reduced involvement of Earth-based mission support increases the cumulative impact of the risks encountered in space. To respond to these challenges, it becomes increasingly important to develop the capability to manage an organism's self-regulatory control system, which would enable survival in extraterrestrial environments. To significantly reduce the risk to animals on future long duration space missions, we propose the use of metabolically flexible animal models as "pathfinders," which are capable of tolerating the environmental extremes exhibited in spaceflight, including altered gravity, exposure to space radiation, chemically reactive planetary environments and temperature extremes. In this report we survey several of the pivotal metabolic flexibility studies and discuss the importance of utilizing animal models with metabolic flexibility with particular attention given to the ability to suppress the organism's metabolism in spaceflight experiments beyond LEO. The presented analysis demonstrates the adjuvant benefits of these factors to minimize damage caused by exposure to spaceflight and extreme planetary environments. Examples of microorganisms and animal models with dormancy capabilities suitable for space research are considered in the context of their survivability under hostile or deadly environments outside of Earth. Potential steps toward implementation of metabolic control technology in spaceflight architecture and its benefits for animal experiments and manned space exploration missions are discussed.

metabilic flexibility↗

DOE OSTI2021

U.S. Manufacturing Water Use Data and Estimates: Current State, Limitations, and Future Needs for Supporting Manufacturing Research and Development

Water is essential to manufacturing operations; without it, many facilities could not operate or meet production demands. Physical, reputational, and regulatory risks to water supplies compounded by climate change-induced impacts on hydrological conditions threaten the adequacy of water supplies for manufacturing. Manufacturing water use has not been a major focus of either water or manufacturing-related research. Research and development (R&D) aimed at helping manufacturers use water more sustainably and adapt to changing water conditions is needed to ensure a thriving sector and economy. However, the ability to identify R&D needs is severely limited due to a lack of current, statistically representative data on manufacturing water use and its environmental implications. In this Perspective, we outline four key questions to inform R&D on manufacturing use and highlight how the current state of water data in the United States does not support the adequate investigation of these questions. We make recommendations for the water data characteristics needed to explore the research questions and knowledgeably inform R&D on manufacturing water use.

McCall, James↗

DOE OSTI2022

An expanded role for the transcription factor WRINKLED1 in the biosynthesis of triacylglycerols during seed development

The transcription factor WRINKLED1 ( WRI1 ) is known as a master regulator of fatty acid synthesis in developing oilseeds of Arabidopsis thaliana and other species. WRI1 is known to directly stimulate the expression of many fatty acid biosynthetic enzymes and a few targets in the lower part of the glycolytic pathway. However, it remains unclear to what extent and how the conversion of sugars into fatty acid biosynthetic precursors is controlled by WRI 1. To shortlist possible gene targets for future in-planta experimental validation, here we present a strategy that combines phylogenetic foot printing of cis-regulatory elements with additional layers of evidence. Upstream regions of protein-encoding genes in A. thaliana were searched for the previously described DNA-binding consensus for WRI1, the ASML1/WRI1 (AW)-box. For about 900 genes, AW-box sites were found to be conserved across orthologous upstream regions in 11 related species of the crucifer family. For 145 select potential target genes identified this way, affinity of upstream AW-box sequences to WRI1 was assayed by Microscale Thermophoresis. This allowed definition of a refined WRI1 DNA-binding consensus. We find that known WRI1 gene targets are predictable with good confidence when upstream AW-sites are phylogenetically conserved, specifically binding WRI1 in the in vitro assay, positioned in proximity to the transcriptional start site, and if the gene is co-expressed with WRI1 during seed development. When targets predicted in this way are mapped to central metabolism, a conserved regulatory blueprint emerges that infers concerted control of contiguous pathway sections in glycolysis and fatty acid biosynthesis by WRI1. Several of the newly predicted targets are in the upper glycolysis pathway and the pentose phosphate pathway. Of these, plastidic isoforms of fructokinase ( FRK 3) and of phosphoglucose isomerase ( PGI 1) are particularly corroborated by previously reported seed phenotypes of respective null mutations.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

Molten Salt Reactor Safety Assessment - Three Approaches to A Common Objective

Safety adequacy assessment is central to nuclear power plant (NPP) licensing. Either NPP accident mitigation or prevention can result in adequate safety. Accident prevention, along with the the prevention of accident escalation, can be evaluated using either deterministic or probabilistic methods. Acceptable means to develop principal design criteria (PDCs) via probabilistic methods are provided in NRC Regulatory Guide 1.233 while advanced reactor design criteria are provided in NRC Regulatory Guide 1.232 (RG 1.232). Accident mitigation-based regulatory guidance for non-power reactors is provided in NUREG 1537. While RG 1.232 included class specific guidance for both sodium-cooled fast reactors and modular high-temperature gas-cooled reactors, it did not provide molten salt reactor (MSR) class specific guidance. Class specific design criteria more closely align with reactors in their class so will require less effort to employ to develop design specific PDCs. The American Nuclear Society has recently released a liquid-fueled MSR design safety standard (ANSI/ANS-20.2-2023) that provides class specific design criteria.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2021

Quality Assurance Program Plan for SFR Metallic Fuel Data Qualification

This document contains an evaluation of the applicability of the current Quality Assurance Standards from the American Society of Mechanical Engineers Standard NQA-1 (NQA-1) criteria and identifies and describes the quality assurance process(es) by which attributes of historical, analytical, and other data associated with sodium-cooled fast reactor [SFR] metallic fuel will be evaluated. This process is being instituted to facilitate validation of data to the extent that such data may be used to support future licensing efforts associated with advanced reactor designs. The initial data to be evaluated under this program were generated during the US Integral Fast Reactor program between 1984-1994, where the data include, but are not limited to, research and development data and associated documents, test plans and associated protocols, operations and test data, technical reports, and information associated with past United States Nuclear Regulatory Commission reviews of SFR designs. It is recognized that managing the data generated by large research and development projects presents a significant challenge for retaining data integrity and availability. American Society of Mechanical Engineers Standard NQA-1 (NQA-1) 2008/2009a provides appropriate requirements for this plan.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

DOE OSTI2025

Quality Assurance Program Plan for SFR Metallic Fuel Data Qualification

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

DOE OSTI2020

On the Formalization of Development and Assessment Process for Digital Twins in the Nearly Autonomous Management and Control System

In recent years, the autonomous control system has been encouraged in advanced reactors for restoring economic viability, simplifying the operation and maintenance, and enabling remote-site power generations [1]. Since the reactor is expected to be operated for a long period of time with a limited number of individuals onsite, it is recommended that the autonomous control system should have access to very realistic models of the state of processes in the whole lifecycle, together with these process behaviors in interaction with their environment in the real world. As a result, digital twin (DT) technology is suggested in autonomous control systems. DT is defined as a digital representation of a physical object or system, which contains a record for the histories of loads, operation and maintenance status, predictions for the near-term transient of important state variables, and decision-making process [2]. Since machine learning (ML) can recognize patterns within a complex system in real-time applications, it has been used to build DTs in the autonomous control systems for advanced reactors. Meanwhile, due to the rareness of operation data in accident scenarios, the development and assessment of DTs is expected to be mainly driven by simulations. Although the capability and feasibility of ML-based DTs are recognized in improving the safety and efficiency of reactor control, a major concern from the regulatory commission and the nuclear industry is whether the information from a DT is developed and assessed in accordance with expectation and requirements by the target decision. Such concerns not only affect the acceptance criteria for DTs, but also values that can be extracted from DTs and autonomous control system during operations. Inspired by the success of formal methods in improving the reliability and robustness of computer programming and software development, it is suggested that the development and assessment process (DAP) for both separate DTs and integral control system should be formalized in a transparent, consistent, and improvable manner. In this study, a digital-twin development and assessment process (DT-DAP) is proposed by adapting the evaluation model development and assessment process (EMDAP) [3] to requirements by the autonomous control system, ML algorithms, and DT technology. To demonstrate the framework, a baseline nearly autonomous management and control (NAMAC) system with ML-based DTs for diagnosis and prognosis is developed and assessed based on the framework. It is found that with selected testing methods and techniques, the DT-DAP can help identify errors in DTs and NAMAC which would otherwise be left unverified. Meanwhile, it is found that the DT-DAP can improve the DTs and NAMAC by continuously learning and iterating through different elements.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

DOE OSTI2025

Risk-informed Graded Approach for Reliability and Performance Assessment of Machine Learning and Artificial Intelligence for Advanced Condition Monitoring Techniques

With the shift away from time-based maintenance and toward condition-based maintenance, and to reduce overall maintenance costs, there has been an upsurge in the usage and development of advanced condition monitoring (ACM) techniques for real-time monitoring of nuclear power plant (NPP) components. ACM is particularly useful in the development of digital twins, which are designed to predict the failure or degradation of plant components. Successful implementation of ACM requires an assessment to inform the development of a risk-informed approach to evaluate the use of ACM to meet Nuclear Regulatory Committee (NRC) regulations for in-service testing (IST) programs. This includes the monitoring and diagnostics of reactor components and systems in current, new, and advanced reactors. A key component in ACM is the usage of machine learning (ML) and artificial intelligence (AI) algorithms that can employ real-time data from instrumentation and sensors to detect and predict reactor component degradations. Such predictive capabilities enable early detection of component degradation so as to help plant personnel plan and execute necessary maintenance. For successful implementation of ML/AI in ACM such that regulatory requirements are met, a risk-informed graded approach is needed to assess the reliability and performance of ML/AI for ACM. The American Society for Mechanical Engineers (ASME) developed their Operations and Maintenance (O&M) Code to provide guidance on safe, reliable O&M of NPPs. The IST section of the O&M Code specifically establishes requirements for IST and examination to gauge operational readiness of components in water-cooled NPPs. This paper presents a state-of-the-art review of how reliability and risk assessment can be integrated with ACM to assess component performance by non-nuclear industries. This is followed by different methodologies and approaches for conducting performance and reliability assessments so as to meet IST requirements for NPP components.

97 - MATHEMATICS AND COMPUTING↗

DOE OSTI2025

Risk-informed Graded Approach for Reliability and Performance Assessment for Advanced Condition Monitoring Techniques

99 - GENERAL AND MISCELLANEOUS↗

DOE OSTI2021

Moving from scientific research to consenting guidance for MRE environmental risk

Potential environmental effects from tidal and wave devices are of concern to regulators, advisors, and other stakeholders in many nations. Monitoring results from early deployments and the first commercial arrays, coupled with targeted research studies, are providing a growing base of knowledge of how components of tidal turbines and wave energy converters might interact with marine animals and habitats. Efforts are underway to organize and direct these findings towards facilitating consenting that allays concerns and allows the marine renewable energy (MRE) industry to move forward. The OES-Environmental international initiative has developed scientific evidence bases for several key interactions from MRE devices, organized around stressors (portions of MRE systems that may cause injury or stress to the marine ecosystem), and receptors (the animals, habitats, and ecosystem processes that may be affected). This paper summarizes the evidence bases for four stressors (underwater noise, electromagnetic fields, habitat change, and changes in oceanographic systems) and presents the process of moving from the scientific knowledge into guidance documents to support the regulatory process. The guidance documents will serve as a broad guide that can be used internationally to look at stressor-receptor interactions of interest within a regulatory context. The evidence bases and guidance documents aim to assist MRE developers, regulators, and advisors with project scoping, consenting, and licensing processes.

Copping, Andrea E.↗

DOE OSTI2023

Conserved enhancers control notochord expression of vertebrate Brachyury

The cell type-specific expression of key transcription factors is central to development and disease. Brachyury/T/TBXT is a major transcription factor for gastrulation, tailbud patterning, and notochord formation; however, how its expression is controlled in the mammalian notochord has remained elusive. Here, we identify the complement of notochord-specific enhancers in the mammalian Brachyury/T/TBXT gene. Using transgenic assays in zebrafish, axolotl, and mouse, we discover three conserved Brachyury-controlling notochord enhancers, T3, C, and I, in human, mouse, and marsupial genomes. Acting as Brachyury-responsive, auto-regulatory shadow enhancers, in cis deletion of all three enhancers in mouse abolishes Brachyury/T/Tbxt expression selectively in the notochord, causing specific trunk and neural tube defects without gastrulation or tailbud defects. The three Brachyury-driving notochord enhancers are conserved beyond mammals in the brachyury/tbxtb loci of fishes, dating their origin to the last common ancestor of jawed vertebrates. Our data define the vertebrate enhancers for Brachyury/T/TBXTB notochord expression through an auto-regulatory mechanism that conveys robustness and adaptability as ancient basis for axis development.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

TCCSP Project Implementation Plan

The TCCSP CarbonSAFE Phase II efforts focused on developing the technical, community, and economic foundation for a commercial-scale regional geologic storage complex for CO 2 captured. TCCSP has conducted a thorough evaluation of the regional, local, and site-specific geology, legacy well infrastructure, injection site design, and project planning as part of the CarbonSAFE Phase II TCCSP. Specially, the work performed under the CarbonSAFE Phase II has significantly furthered the advancement towards the commerciality of the TCCSP storage complex by delivering on the following objectives: Objective 1: Acquire site-specific characterization data to validate carbon dioxide (CO 2 ) storage estimates of reservoir units and the competency of confining layers in the region to prevent CO 2 leakage to develop a commercial-scale CO 2 project. Objective 2: Assess technical, economic, regulatory, and stakeholder aspects of the TCCSP.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

PagMYB128 regulates secondary cell wall formation by direct activation of cell wall biosynthetic genes during wood formation in poplar

The biosynthesis of cellulose, lignin, and hemicelluloses in plant secondary cell walls (SCWs) is regulated by a hierarchical transcriptional regulatory network. Here, this network features orthologous transcription factors shared between poplar and Arabidopsis, highlighting a foundational similarity in their genetic regulation. However, knowledge on the discrepant behavior of the transcriptional-level molecular regulatory mechanisms between poplar and Arabidopsis remains limited. In this study, we investigated the function of PagMYB128 during wood formation and found it had broader impacts on SCW formation compared to its Arabidopsis ortholog, AtMYB103. Transgenic poplar trees overexpressing PagMYB128 exhibited significantly enhanced xylem development, with fiber cells and vessels displaying thicker walls, and an increase in the levels of cellulose, lignin, and hemicelluloses in the wood. In contrast, plants with dominant repression of PagMYB128 demonstrated the opposite phenotypes. RNA sequencing and reverse transcription – quantitative polymerase chain reaction showed that PagMYB128 could activate SCW biosynthetic gene expression, and chromatin immunoprecipitation along with yeast one-hybrid, and effector–reporter assays showed this regulation was direct. Further analysis revealed that PagSND1 (SECONDARY WALL-ASSOCIATED NAC-DOMAIN PROTEIN1) directly regulates PagMYB128 but not cell wall metabolic genes, highlighting the pivotal role of PagMYB128 in the SND1-driven regulatory network for wood development, thereby creating a feedforward loop in SCW biosynthesis.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2026

Compilation and utilization of a sorghum transcriptome compendium for gene regulatory network analysis and crop trait engineering

Sorghum bicolor (Sorghum) is a drought and heat tolerant C4 grass crop used to produce grain, forage, biofuels, and other bioproducts. Genetic improvement of sorghum hybrid crops is aided by a large and diverse germplasm, sorghum's diploid inbreeding genetics, and a relatively small genome that has facilitated genomic research. Over the past 20 years, the sorghum research community characterized the cytogenetic and recombinant landscapes of sorghum's 10 chromosomes, sequenced and annotated the sorghum genome, and used that information to identify genes/alleles that modulate flowering time, plant height, seed shattering, and other important traits. More recently, >1000 RNA-seq transcriptome profiles were collected from 15 sorghum genotypes to help understand the genetic basis of variation in growth and development of sorghum stems, tillers, roots, and leaves, and the regulation of biosynthetic pathways that produce epicuticular wax, dhurrin, and RFOs, compounds that contribute to sorghum's resilience. Transcriptome studies were designed to identify differentially expressed genes that are co-expressed during development or in response to a treatment to enable construction of gene regulatory networks. Co-expression and network analysis identified transcription factors and their cognate binding sites in target gene promoters and signaling pathways that modulate gene regulatory networks providing gene editing targets for further trait optimization. RNA-seq data from >20 experiments targeting sorghum organs, tissues, cell types, developmental stages, and responses to environmental conditions (i.e., diel, day-length, shading, water-deficit, temperature) has been compiled in a sorghum transcriptome compendium. The goal of this resource paper is to describe compendium content, accessibility, and a compendium data analysis pipeline and to illustrate the types of information that can be derived from the compendium with a focus on the elucidation of gene regulatory networks useful for guiding the improvement of sorghum traits through gene editing.

RNA-seq↗