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DOE OSTI2025

Plant Defense Proteins: Recent Discoveries and Applications

Proteins play pivotal roles in safeguarding plants against numerous biotic and abiotic stresses. Understanding their biological functions and mechanisms of action is essential for advancing plant biology, agriculture, and biotechnology. This review considers the diversity and potential applications of plant defense proteins including pathogenesis-related (PR) proteins, chitinases, glucanases, protease inhibitors, lectins, and antimicrobial peptides. Recent advances, such as the omics technologies, have enabled the discovery of new plant defense proteins and regulatory networks that govern plant defense responses and unveiled numerous roles of plant defense proteins in stress perception, signal transduction, and immune priming. The molecular affinities and enzymatic activities of plant defense proteins are essential for their defense functions. Applications of plant defense proteins span agriculture, biotechnology, and medicine, including the development of resistant crop varieties, bio-based products, biopharmaceuticals, and functional foods. Future research directions include elucidating the structural bases of defense protein functions, exploring protein interactions with ligands and other proteins, and engineering defense proteins for enhanced efficacy. Overall, this review illuminates the significance of plant defense proteins against biotic stresses in plant biology and biotechnology, emphasizing their potential for sustainable agriculture and environmental management.

G-proteins↗
DOE OSTI2025

Developing New Fuels for High Performance Research Reactors

The National Nuclear Security Administration (NNSA) Material Management and Minimization (M3) program works globally to minimize the civilian use of highly enriched uranium (HEU), a weapon-usable nuclear material. Supporting this effort, M3’s Office of Reactor Conversion and Uranium Supply is developing new fuels capable of converting research reactors from HEU fuel to high-assay low-enriched uranium (HALEU) fuel. Some of the remaining research and test reactors (RTRs) operating on HEU today have unique designs, fuel configurations, and demanding performance requirements that cannot be met with an existing regulatory-approved low-enriched uranium (LEU) fuel. M3, DOE’s national laboratories, and other industry partners are qualifying new high-density LEU fuels to convert these RTRs while maintaining their unique capabilities supporting a wide variety of science and technology research in areas such as medicine, industry, defense, education, and training. Current efforts are focused on two options for the remaining US high-performance research reactor conversions: a monolithic uranium 10wt% molybdenum (U-10Mo) fuel form and a dispersion uranium silicide fuel form. This paper reviews the history and status of M3’s fuel qualification efforts for the U-10Mo LEU fuel form.

Montgomery, Rose [ORNL] (ORCID:0000000286038936)↗
DOE OSTI2023

Explainable Artificial Intelligence Technology for Predictive Maintenance

The domestic nuclear power plant fleet has relied on labor-intensive and time-consuming preventive maintenance programs, thus driving up operation and maintenance costs to achieve high-capacity factors. Artificial intelligence and machine learning can help simplify complex problems, such as diagnosing equipment degradation, to enable more effective decision-making. Benefits will be felt not only within existing analog and digital instrumentation and control, but also work processes, the integration of people with technology, and most importantly, the business case. Together, these hold promise to make nuclear power more efficient and reduce costs associated with operation and maintenance. While the artificial intelligence and machine learning technologies hold significant promise in the nuclear industry, there are challenges or barriers to their adoption. This report outlines the those different machine learning adoption barriers (categorized as historical, technical, economic, regulatory, and user) that the industry must overcome to realize the full benefits of artificial intelligence and machine learning capabilities for long-term economic sustainability. This report also provides solutions for some of these barriers by focusing on improving the explainability of machine learning to encourage trust from the end-user. Trust and explainability are essential to machine learning adoption. This report focuses on research-developed solutions to some of these barriers while analyzing a non-safety-related system, namely the circulating water system. This system frequently experiences waterbox fouling which our models preemptively diagnoses then explains to the operator how those conclusions were reached. This report presents and discusses the inherent trade-off between machine learning performance (in terms of accuracy) and explainability, where highly accurate machine learning methods (such as deep-learning) are the least explainable, and the most explainable methods (such as decision trees) are the least accurate. In addition, explainability of artificial intelligence techniques in terms of transparency and post-hoc metrics are discussed. This report outlines the importance of data novelty and value of new information in evaluating both the explainability and trustworthiness. Novelty detection helps to establish consistency or inconsistency of the new data with respect to the training data. On the other hand, value of information could be a part of the user-centric visualization recommendation system that request additional information to be collected, thereby strengthening the machine learning outcomes. During this project, a copyrighted user-centric visualization that aligns with a human-in-the-loop approach was developed. The user-centric visualization presents different levels of information and can be tailored as per user credentials to gain user confidence. One of the salient features of the user-centric visualization is it presents machine learning methods with explainability metrics. A simplified version of the user-centric visualization was presented to 32 users with varying levels of machine learning expertise. Feedback was solicited to test the hypothesis that the app contained sufficient explainability and that the users would trust the algorithm. Overall, the app was positively received, and the hypothesis was supported. This report discusses the trust-but-verify framework – a potential approach to build user trust artificial intelligence. The framework discusses trust from the human level to artificial intelligence level. The fundamental premise of the trust but verify framework is derived from an observation of nuclear safety culture (i.e., nuclear power plant personnel do not rely on a singular source of data to make a decision). This also ties back to the user-centric visualization that presents different levels of information to achieve both explainability and trustworthiness of artificial intelligence. Even so, the adoption of artificial intelligence and machine learning in the nuclear industry faces additional barriers, namely regulatory and stakeholder readiness. To overcome these challenges, new solutions must gain regulatory approval and cater to stakeholder needs. The Nuclear Regulatory Committee has a 5-year strategic plan which prepares them for reviewing artificial intelligence technologies in licensee submissions. Early and frequent engagement with the regulator is encouraged. Additionally, artificial intelligence solutions should incorporate human-in-the-loop considerations and offer explainability. Stakeholders must prepare by hiring or training staff to adapt to advancing technology in everyday plant tasks.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗
DOE OSTI2023

Topologically associating domain boundaries are required for normal genome function

Topologically associating domain (TAD) boundaries partition the genome into distinct regulatory territories. Anecdotal evidence suggests that their disruption may interfere with normal gene expression and cause disease phenotypes1,2,3, but the overall extent to which this occurs remains unknown. Here we demonstrate that targeted deletions of TAD boundaries cause a range of disruptions to normal in vivo genome function and organismal development. We used CRISPR genome editing in mice to individually delete eight TAD boundaries (11–80 kb in size) from the genome. All deletions examined resulted in detectable molecular or organismal phenotypes, which included altered chromatin interactions or gene expression, reduced viability, and anatomical phenotypes. We observed changes in local 3D chromatin architecture in 7 of 8 (88%) cases, including the merging of TADs and altered contact frequencies within TADs adjacent to the deleted boundary. For 5 of 8 (63%) loci examined, boundary deletions were associated with increased embryonic lethality or other developmental phenotypes. For example, a TAD boundary deletion near Smad3/Smad6 caused complete embryonic lethality, while a deletion near Tbx5/Lhx5 resulted in a severe lung malformation. Our findings demonstrate the importance of TAD boundary sequences for in vivo genome function and reinforce the critical need to carefully consider the potential pathogenicity of noncoding deletions affecting TAD boundaries in clinical genetics screening.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

Convergent evolution of aerobic fermentation through divergent mechanisms acting on key shared glycolytic genes

As the tree of life becomes increasingly accessible to molecular investigations, describing mechanisms underlying evolutionary convergence and constraint will be crucial to understanding diversification. The lineage including the model yeast Saccharomyces cerevisiae evolved aerobic fermentation in part through an ancient whole genome duplication and retention of glycolytic genes. To evaluate glycolytic rates across diverse yeasts, we developed and deployed an extracellular acidification rates (ECAR) assay on 299 species that span more than 400 million years of evolution and identified a clade in the genus Saturnispora that convergently evolved aerobic fermentation. Through comparative genomics and transcriptomics, we found that several glycolytic genes had higher expression and novel cis-regulatory elements in aerobically fermenting Saturnispora species. When the transcription factor required for their activation was deleted in Saturnispora dispora, the mutants had reduced glycolytic rates and increased respiration. Intriguingly, many of the upregulated genes are orthologous to duplicated glycolytic genes in S. cerevisiae. These divergent genetic mechanisms affecting the same set of genes suggest that there are strong evolutionary constraints on how aerobic fermentation can arise.

Horianopoulos, Linda C. [Great Lakes Bioenergy Res↗
DOE OSTI2023

Four principles to establish a universal virus taxonomy

A universal taxonomy of viruses is essential for a comprehensive view of the virus world and for communicating the complicated evolutionary relationships among viruses. However, there are major differences in the conceptualisation and approaches to virus classification and nomenclature among virologists, clinicians, agronomists, and other interested parties. Here, we provide recommendations to guide the construction of a coherent and comprehensive virus taxonomy, based on expert scientific consensus. Firstly, assignments of viruses should be congruent with the best attainable reconstruction of their evolutionary histories, i.e., taxa should be monophyletic. This fundamental principle for classification of viruses is currently included in the International Committee on Taxonomy of Viruses (ICTV) code only for the rank of species. Secondly, phenotypic and ecological properties of viruses may inform, but not override, evolutionary relatedness in the placement of ranks. Thirdly, alternative classifications that consider phenotypic attributes, such as being vector-borne (e.g., “arboviruses”), infecting a certain type of host (e.g., “mycoviruses,” “bacteriophages”) or displaying specific pathogenicity (e.g., “human immunodeficiency viruses”), may serve important clinical and regulatory purposes but often create polyphyletic categories that do not reflect evolutionary relationships. Nevertheless, such classifications ought to be maintained if they serve the needs of specific communities or play a practical clinical or regulatory role. However, they should not be considered or called taxonomies. Finally, while an evolution-based framework enables viruses discovered by metagenomics to be incorporated into the ICTV taxonomy, there are essential requirements for quality control of the sequence data used for these assignments. Combined, these four principles will enable future development and expansion of virus taxonomy as the true evolutionary diversity of viruses becomes apparent.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

A Computational Framework for Energy Storage Participation in Transmission Planning with Electricity Market Participation

Energy storage technologies—including pumped storage hydropower (PSH), batteries, and other technologies—have been technically proven to be capable of providing transmission services by regulating power flows and providing voltage support. These technologies will potentially increase the flexibility of transmission infrastructure and may defer (or eliminate) the need for transmission upgrades or new investments. On the regulatory side, Congress and the Federal Energy Regulatory Commission (FERC) have issued several orders over decades that have established energy storage’s (ES) eligibility as a transmission asset. The orders have required transmission planning entities to provide a level playing field where ES can participate in the transmission planning process (TPP) without undue discrimination and preference of technology. These developments pave the way for ES to participate in transmission planning as a transmission asset. On the other hand, as a flexible resource, ES can play an important role in the electricity market to enable more renewable energy integration by providing energy and grid reliability services. This could bring more revenue in return.

25 ENERGY STORAGE↗
DOE OSTI2021

Electricity Market Dynamics as Smooth Games: Organizing Gradient-Based Learners and Identifying Instabilities

Wide-spread adoption of machine learning and distributed energy production has the potential to fundamentally change behaviours of energy markets. In practice, along with the benefits, previously unseen instabilities have begun emerging in markets currently embracing these technologies. In this report we study electricity markets as dynamical systems arising in smooth games, where energy consumers are modelled as gradient-based learners who interact on a graph through distributed energy producers. We give simple examples of how instabilities can arise even when the consumers’ local objectives seem reasonable and how these instabilities can be remedied. Drawing insights from these examples, we begin developing a general model of optimization-driven electricity market dynamics and give conditions for ensuring local Nash equilibria of the system are stable fixed points of the dynamics. Our results demonstrate how models of electricity market dynamics might be used for deriving formal guarantees in order to stabilize markets and enact regulatory policies in the face of market shocks.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗
DOE OSTI2024

Machine learning models of intermittent operation of RO wellhead water treatment for salinity reduction and nitrate removal

Machine learning models were developed for intermittent multi-mode operation of a wellhead reverse osmosis water purification and desalination system to predict salt passage, nitrate passage, and permeate flux. The models, based on long short-term memory (LSTM) recurrent neural network (RNN) architecture, included an attention mechanism to increase model performance in proximity of the regulatory limit for nitrate. Training and testing of the models for the Startup, Production, Shutdown and Flushing operational modes were based on operational data (consisting of 22 process variables per data sample) acquired every 2–5 s over a six-month period. The significant sets of model input attributes for the different operational modes were assessed via Spearman ranking correlation, Self-Organizing Map (SOM) analysis and feed forward feature selection (FFFS). Although the variability of nitrate passage, salt passage and permeate flux was significant over the four operational modes, prediction performance for the three outcomes were with R2 and Average Absolute Relative Error (AARE) of 0.78–0.95 and 2.96–6.16 %, respectively. Model updates post membrane elements replacement demonstrated similar levels of prediction accuracy. The study results suggest that there is merit in exploring the utility of multi-mode models for sensor fault detection, data imputation, and for potential use in model-predictive control.

Intermittent RO operation↗
DOE OSTI2021

Oral delivery of a functional algal-expressed TGF-β mimic halts colitis in a murine DSS model

Inflammatory bowel disease (IBD) is a set of immunological disorders which can generate chronic pain and fatigue associated with the inflammatory symptoms. The treatment of IBD remains a significant hurdle with current therapies being only partially effective or having significant side effects, suggesting that new therapies that elicit different modes of action and delivery strategies are required. TGM1 is a TGF-β mimic that was discovered from the intestinal helminth parasite Heligmosomoides polygyrus and is thought to be produced by the parasite to suppress the intestinal inflammation response to help evade host immunity, making it an ideal candidate to be developed as a novel anti-inflammatory bio-therapeutic. Here we utilized the expression system of the edible green algae Chlamydomonas reinhardtii in order to recombinantly produce active TGM1 in a form that could be ingested. C. reinhardtii robustly expressed TGM1, and the resultant recombinant protein is biologically active as measured by regulatory T cell induction. When delivered orally to mice, the algal expressed TGM1 is able to ameliorate weight loss, lymphadenopathy, and disease symptoms in a mouse model of DSS-induced colitis, demonstrating the potential of this biologic as a novel treatment of IBD.

09 BIOMASS FUELS↗
DOE OSTI2020

CASL Annual Report (FY2018)

The Consortium for Advanced Simulation of Light Water Reactors (CASL) was established in July 2010 as the first US Department of Energy (DOE) Energy Innovation Hub. The consortium was initially funded for five years to develop advanced modeling and simulation (M&S) tools that can be used to analyze issues associated with the operation of US commercial light water reactors (LWRs). During this period, the program focused primarily on capabilities to solve challenges related to pressurized water reactor (PWR) operation. In January 2015, the program was extended for an additional five years with the goal of finalizing development and deployment of CASL tools for PWR analysis and extending the program’s tools for use in small modular reactor (SMR) operation and boiling water reactor (BWR) analyses. In February 2018, the CASL program was authorized to receive additional funds to focus on the use of advanced M&S tools in a regulatory environment.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗
DOE OSTI2020

Modernization of Technical Requirements for Licensing of Advanced Non-Light Water Reactors: Probabilistic Risk Assessment Approach

This report, “Modernization of Technical Requirements for Licensing of Advanced Non-Light Water Reactors: Probabilistic Risk Assessment Approach,” represents a key element in the development of a methodology for the efficient licensing of advanced non-light water reactors (non-LWRs). It is the result of a Licensing Modernization Project (LMP) led by Southern Company and cost-shared by the U.S. Department of Energy (DOE). The LMP has developed detailed proposals for establishing licensing technical requirements to facilitate risk-informed and performance-based design and licensing of advanced non-LWRs. Such a methodology acknowledges enhancements in safety achievable with advanced designs and reflects more recent states of knowledge regarding safety and design innovation, creating an opportunity for reduced regulatory complexity with increased levels of safety. The project builds on best practices, as well as previous activities through DOE and industry-sponsored advanced reactor licensing initiatives.

42 ENGINEERING↗
DOE OSTI2023

Non-LWR Fuel Cycle Scenarios for SCALE and MELCOR Modeling Capability Demonstration

To assess the modeling and simulation capabilities for radionuclide characterization, criticality, and shielding in the nuclear fuel cycle of non-light–water reactor (LWR) technologies, the US Nuclear Regulatory Commission (NRC) initiated a collaborative project between the NRC, Sandia National Laboratories (SNL), and Oak Ridge National Laboratory (ORNL) with the goal to demonstrate capabilities of MELCOR and SCALE to calculate accident scenarios in all stages of the nuclear fuel cycle for relevant non-LWRs. The first project task was to develop representative nuclear fuel cycles and identify potential hazards and accident scenarios in the individual fuel cycle stages based on publicly available information. Because the nuclear fuel cycle is not established for any non-LWR concept, many assumptions were made, and it is anticipated that the details of the fuel cycles will eventually look different.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2026

Case Study: BESS Capacity Building for Malawi

To strengthen Malawi's national electricity grid and to enhance reliability, the government of Malawi and the Electricity Supply Corporation of Malawi are partnering with the Global Alliance for People and Planet to develop a 20-megawatt/30-megawatt-hour battery energy storage system at Kanengo, Malawi, expected to come online in 2026. In parallel, the Global Energy Alliance for People and Planet and the National Laboratory of the Rockies implemented a comprehensive technical capacity-building program to equip the Electricity Supply Corporation of Malawi, the Malawi Energy Regulatory Authority, and the Malawi University of Business and Applied Sciences with the expertise needed to plan, regulate, and operate advanced storage systems.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗
DOE OSTI2022

Evaluation Challenges for the Application of Extended Reality Devices in Medicine

Augmented and virtual reality devices are being actively investigated and implemented for a wide range of medical uses. However, significant gaps in the evaluation of these medical devices and applications hinder their regulatory evaluation. Addressing these gaps is critical to demonstrating the devices’ safety and effectiveness. We outline the key technical and clinical evaluation challenges discussed during the US Food and Drug Administration’s public workshop, “Medical Extended Reality: Toward Best Evaluation Practices for Virtual and Augmented Reality in Medicine” and future directions for evaluation method development. Evaluation challenges were categorized into several key technical and clinical areas. Finally, we highlight current efforts in the standards communities and illustrate connections between the evaluation challenges and the intended uses of the medical extended reality (MXR) devices. Participants concluded that additional research is needed to assess the safety and effectiveness of MXR devices across the use cases.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2025

Game theoretic modeling and optimization of competition and collaboration in dual channel electronic waste supply chains

The rapid growth of electronic waste (e-waste) presents critical challenges for sustainable resource recovery and environmental protection. This study develops a dual-channel closed-loop supply chain (CLSC) model formulated as a hierarchical Stackelberg game, that integrates dynamic pricing and cost-sharing mechanisms to optimize both economic and environmental outcomes. The model explicitly captures strategic interactions between manufacturer-led and third-party recycling channels, accounting for consumer behavior, regulatory incentives, and market competition. Numerical simulations conducted (implemented over a four-iteration horizon using a commercial optimization solver) show that, relative to the baseline equilibrium, manufacturer profit increases from 11.6 thousand USD to 37.9 thousand USD (+226.8%), total recycled volume rises from 7,848 to 7,942 units (+1.2%), and collector profit nearly doubles under cost-sharing, enabling more equitable profit distribution. Furthermore, scenario-based simulations across Sub-Saharan Africa, high-income economies, and emerging Asian industrial countries reveal that infrastructure quality, policy intensity, and labor costs critically shape recycling efficiency and profit allocation. These findings demonstrate that subsidies alone are insufficient to ensure system efficiency. Instead, coordinated strategies that integrate internal incentive alignment with context-sensitive policy support are required. Overall, this study offers a robust framework for designing resilient, efficient, and regionally adaptable e-waste management systems.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗
DOE OSTI2024

Decoding FGF/FGFR Signaling: Insights into Biological Functions and Disease Relevance

Fibroblast Growth Factors (FGFs) and their cognate receptors, FGFRs, play pivotal roles in a plethora of biological processes, including cell proliferation, differentiation, tissue repair, and metabolic homeostasis. This review provides a comprehensive overview of FGF-FGFR signaling pathways while highlighting their complex regulatory mechanisms and interconnections with other signaling networks. Further, we briefly discuss the FGFs involvement in developmental, metabolic, and housekeeping functions. By complementing current knowledge and emerging research, this review aims to enhance the understanding of FGF-FGFR-mediated signaling and its implications for health and disease, which will be crucial for therapeutic development against FGF-related pathological conditions.

Edirisinghe, Oshadi↗
DOE OSTI2024

Instrumentation for the In-Core Real-Time Mechanical Testing of Structural Materials (INCREASE) Project

Idaho National Laboratory (INL), in collaboration with the Electric Power Research Institute (EPRI), the Nuclear Regulatory Commission (NRC), the French Atomic and Alternative Energies Commission (CEA), the Joint Research Center (JRC), the Nuclear Research and Consultancy Group (NRG), and the Research Center Rez (CVR), started a Joint Experimental Program (JEEP) project that operates within the Nuclear Energy Agency’s Framework for Irradiation Experiments (FIDES II) program in order to develop capabilities for the in-core real-time mechanical testing of structural materials. This effort will focus on designing a shared capsule capable of housing a variety of in-core mechanical testing instrumentation allowing enhanced experiments for the material science community. The outcome of the project would be high-priority, stress relaxation data for stainless-steel-based materials provided by EPRI and CEA. Stress relaxation is a major phenomenon that contributes to material degradation in nuclear reactor components. Currently, nuclear material stress relaxation is assessed both before and after irradiation, using complex and costly post-irradiation examination (PIE) activities. In-situ data would support the development of precision modeling and simulation of this degradation phenomena and would provide validation and benchmarking for existing models using the PIE data. As part of the U.S. Department of Energy Advanced Sensor and Instrumentation (ASI) program, INL has fabricated and tested out-of-core mechanical test instrumentation. This instrumentation was designed for easy adaptation to the irradiation capsule proposed under this JEEP, and can be deployed to measure real-time stress relaxation under pressurized-water reactor (PWR) conditions. This initial effort will partially serve to replace the testing capabilities lost because of shutting down the Halden Boiling Water Reactor (HBWR). The project would provide these capabilities to the international community via a shared capsule design that is easily adaptable to additional material test reactors. The design features will incorporate expansion to PWR and non-light-water reactor (LWR) environments that will be developed in future work. The capsule and instrumentation will be demonstrated in the Massachusetts Institute of Technology Reactor (MITR) for phase I and the Petten High Flux Reactor (HFR) for phase II irradiations to deliver real-time stress relaxation data on high priority stainless steel structural materials.

36 MATERIALS SCIENCE↗