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At least 109 records · Page 6

Updated Virophage Taxonomy and Distinction from Polinton-like Viruses

Virophages are small dsDNA viruses that hijack the machinery of giant viruses during the co-infection of a protist (i.e., microeukaryotic) host and represent an exceptional case of “hyperparasitism” in the viral world. While only a handful of virophages have been isolated, a vast diversity of virophage-like sequences have been uncovered from diverse metagenomes. Their wide ecological distribution, idiosyncratic infection and replication strategy, ability to integrate into protist and giant virus genomes and potential role in antiviral defense have made virophages a topic of broad interest. However, one limitation for further studies is the lack of clarity regarding the nomenclature and taxonomy of this group of viruses. Specifically, virophages have been linked in the literature to other “virophage-like” mobile genetic elements and viruses, including polinton-like viruses (PLVs), but there are no formal demarcation criteria and proper nomenclature for either group, i.e., virophage or PLVs. Here, as part of the ICTV Virophage Study Group, we leverage a large set of genomes gathered from published datasets as well as newly generated protist genomes to propose delineation criteria and classification methods at multiple taxonomic ranks for virophages ‘sensu stricto’, i.e., genomes related to the prototype isolates Sputnik and mavirus. Based on a combination of comparative genomics and phylogenetic analyses, we show that this group of virophages forms a cohesive taxon that we propose to establish at the class level and suggest a subdivision into four orders and seven families with distinctive ecogenomic features. Finally, to illustrate how the proposed delineation criteria and classification method would be used, we apply these to two recently published datasets, which we show include both virophages and other virophage-related elements. Overall, we see this proposed classification as a necessary first step to provide a robust taxonomic framework in this area of the virosphere, which will need to be expanded in the future to cover other virophage-related viruses such as PLVs.

59 BASIC BIOLOGICAL SCIENCES↗

Land cover and space use influence coyote carnivory: evidence from stable-isotope analysis

For many species, the relationship between space use and diet composition is complex, with individuals adopting varying space use strategies such as territoriality to facilitate resource acquisition. Coyotes ( Canis latrans ) exhibit two disparate types of space use; defending mutually exclusive territories (residents) or moving nomadically across landscapes (transients). Resident coyotes have increased access to familiar food resources, thus improved foraging opportunities to compensate for the energetic costs of defending territories. Conversely, transients do not defend territories and are able to redirect energetic costs of territorial defense towards extensive movements in search of mates and breeding opportunities. These differences in space use attributed to different behavioral strategies likely influence foraging and ultimately diet composition, but these relationships have not been well studied. We investigated diet composition of resident and transient coyotes in the southeastern United States by pairing individual space use patterns with analysis of stable carbon (δ 13 C) and nitrogen (δ 15 N) isotope values to assess diet. During 2016–2017, we monitored 41 coyotes (26 residents, 15 transients) with GPS radio-collars along the Savannah River area in the southeastern United States. We observed a canopy effect on δ 13 C values and little anthropogenic food in coyote diets, suggesting 13 C enrichment is likely more influenced by reduced canopy cover than consumption of human foods. We also observed other land cover effects, such as agricultural cover and road density, on δ 15 N values as well as reduced space used by coyotes, suggesting that cover types and localized, resident-like space use can influence the degree of carnivory in coyotes. Finally, diets and niche space did not differ between resident and transient coyotes despite differences observed in the proportional contribution of potential food sources to their diets. Although our stable isotope mixing models detected differences between the diets of resident and transient coyotes, both relied mostly on mammalian prey (52.8%, SD = 15.9 for residents, 42.0%, SD = 15.6 for transients). Resident coyotes consumed more game birds (21.3%, SD = 11.6 vs 13.7%, SD = 8.8) and less fruit (10.5%, SD = 6.9 vs 21.3%, SD = 10.7) and insects (7.2%, SD = 4.7 vs 14.3%, SD = 8.5) than did transients. Our findings indicate that coyote populations fall on a feeding continuum of omnivory to carnivory in which variability in feeding strategies is influenced by land cover characteristics and space use behaviors.

59 BASIC BIOLOGICAL SCIENCES↗

Small and mighty: adaptation of superphylum Patescibacteria to groundwater environment drives their genome simplicity

The newly defined superphylum Patescibacteria such as Parcubacteria (OD1) and Microgenomates (OP11) has been found to be prevalent in groundwater, sediment, lake, and other aquifer environments. Recently increasing attention has been paid to this diverse superphylum including > 20 candidate phyla (a large part of the candidate phylum radiation, CPR) because it refreshed our view of the tree of life. However, adaptive traits contributing to its prevalence are still not well known. Results Here, we investigated the genomic features and metabolic pathways of Patescibacteria in groundwater through genome-resolved metagenomics analysis of >600 Gbp sequence data. We observed that, while the members of Patescibacteria have reduced genomes (~ 1 Mbp) exclusively, functions essential to growth and reproduction such as genetic information processing were retained. Surprisingly, they have sharply reduced redundant and nonessential functions, including specific metabolic activities and stress response systems. The Patescibacteria have ultra-small cells and simplified membrane structures, including flagellar assembly, transporters, and two-component systems. Despite the lack of CRISPR viral defense, the bacteria may evade predation through deletion of common membrane phage receptors and other alternative strategies, which may explain the low representation of prophage proteins in their genomes and lack of CRISPR. By establishing the linkages between bacterial features and the groundwater environmental conditions, our results provide important insights into the functions and evolution of this CPR group.

59 BASIC BIOLOGICAL SCIENCES↗

Challenges and Practical Solutions for Conducting Structural MARSSIM Surveys in Elevated Radon Environments - 20413

The Multi-Agency Radiation Survey and Site Investigation Manual (MARSSIM) [1] provides comprehensive guidance for the development and implementation of radiological surveys conducted to demonstrate compliance with a dose- or risk-based cleanup goal during final status survey. The MARSSIM methodology follows an integrated strategy combining direct measurements and sampling to assess uniform residual contamination, and scanning surveys to identify localized areas of elevated activity. Building surveys assessing residual surface contamination present unique challenges from reliance on field measurements that may be subject to less than ideal environmental conditions. Additionally, limited characterization and excessive conservatism incorporated into the conceptual site model may result in derived concentration guideline levels (DCGL) and, as a consequence of relatively inefficient field instrumentation, corresponding attributable count rates generally comparable to background. The presence of elevated ambient radon concentrations and associated progeny deposition both exacerbate these intrinsic survey challenges and introduce a series of technical, logistic, and administrative obstacles that can wreak havoc on the statistical legitimacy of each component of the MARSSIM process. Short-lived radon progeny including polonium-218, lead-214, bismuth-214, and polonium-214 produce excessive alpha and beta radiation that may decrease instrument sensitivity through an increase in background count rates, and, at worst, may result in incorrect survey unit failure through the simulation of residual surface activity. Aside from the obvious solution of exhaustive radon mitigation, the primary objectives are to distinguish between radon progeny deposition and actual surface activity, and collect sufficient defensible data. The following is a technical discussion of the consequences of performing building MARSSIM surveys in the presence of elevated ambient radon atmospheres, conceptual examples, and an overview of practical strategies to minimize the effects of radon interference while collecting sufficient defensible data to complete the survey. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

How Quantum Sensing Will Help Solve GPS Denial in Warfare

The U.S. military’s ability to posture, deter, and prevail in future conflicts may rest on the quantum sensing position, navigation, and timing (PNT) capabilities that are currently being developed. Heavy reliance on GPS signals for PNT has become a critical vulnerability for the U.S. military. Meanwhile, the conflict in Ukraine has demonstrated that GPS denial and electronic warfare (EW) is now a key component of modern combat and satellite-guided munitions are reportedly being rendered ineffective. The Department of Defense (DOD) is focusing on upgrading GPS to use stronger, military-specific signals, which will still be vulnerable to EW and anti-satellite capabilities. A more diverse and resilient alternate-PNT strategy is needed to ensure mission success.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

Artificial Intelligence for Digital Security and Protections

Proper functioning of nuclear power plants relies on a mix of well-regulated human and machine-driven workflows. This regulation supports nuclear safety through a series of processes and many of the tasks that support these processes have a repetitive nature that make artificial intelligence (AI) informed by machine learning (ML) a potential aid in a variety of tasks. AI is being evaluated for activities that include inspections, fuel processing, monitoring, and other activities. The introduction of any new technology presents a potential new attack vector. In the case of AI/ML, there are many attacks that have already been discovered and over time the attacks can be expected to follow the growth pattern observed in cyber security. While future planning is necessary, current efforts need to be established now to predict the threat emergence over the next year 10 years and mitigate potential threats. Based on these observations, AI/ML will need to become trustworthy, which corresponds to techniques and procedures that emphasize AI explainability along with resilience techniques to data, algorithms, models, and systems. This kind of system robustness is the foundation for defenses against AI/ML-specific attacks. Attempting to look forward and take a broad view of capabilities provides input to research roadmaps and the ability to distill vulnerabilities into specific use cases may provide greater assistance in understanding the technology benefits while introducing new risks. The impact of current and future AI in three areas—capabilities, challenges, and recovery strategies—represents an initial attempt at balancing both.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

Cyber Resilience and Social Equity: Twin Pillars of a Sustainable Energy Future

This paper examines the intersection of security and accessibility within energy systems amidst the rise of grid modernization and digitization, especially considering the regulatory changes and the imperatives of inclusive energy strategies. It addresses the dual need for secure, resilient infrastructure and a commitment to mitigate energy poverty while maintaining equitable access to energy. Amid escalating cybersecurity and physical threats, the paper advocates for sustainable energy delivery systems that ensure robust defenses without compromising the goals of reducing energy poverty and ensuring energy security. This paper identifies the pressing need for Cyber-Informed Engineering (CIE) and Secure-by-Design (SbD) principles, highlighting how these strategies can protect critical infrastructure and democratize access to secure energy, particularly for disadvantaged communities. The analysis underscores the challenges presented by the expansion of attack surfaces, interoperability requirements, and grid-edge analytics, offering innovative solutions that leverage advanced technologies and data-driven insights. Furthermore, this paper addresses the workforce development gap, emphasizing the necessity for public-private partnerships and vendor engagement in creating a skilled cybersecurity workforce. This paper has a dual focus on both the technological aspect of cybersecurity and the social dimension of equity within the context of sustainable energy development. It suggests a comprehensive examination of how these two critical elements interact and support the overarching goal of a sustainable energy future.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Fortifying the frontier: cell wall modifications during plant immunity

The plant cell wall (CW) was long thought to be a rigid barrier encasing the plant cell and protecting it against biotic and abiotic stressors. Different CW polysaccharides interact with each other, and modifications of either the components or organization of these polysaccharides result in impaired growth or immunity. Emerging evidence suggests that the CW is dynamically modified and reorganized based on internal and external cues. Thus, the CW is both the first barrier that pathogens encounter and the critical final step in defense signaling that leads to fortification of the CW. Here, in this work, we review recent findings on how CW components are remodeled to fortify the CW upon pathogen attack and propose a novel concept: layered CW remodeling as an immune strategy. Within this framework, we categorize three interconnected layers of CW remodeling upon pathogen attack: (i) rapid and reversible CW depositions that provide immediate but transient protection; (ii) flexible modifications with plausible signaling functions that integrate defense and surveillance; and (iii) irreversible fortifications that encase pathogen, delimiting infected cells from uninfected cells. This layered framework provides a cohesive view of how different CW modifications are integrated into, and contribute to, plant defense. We also discuss the challenges in studying CW modifications during biotic stresses and highlight important questions that remain unanswered.

Bhandari, Deepak D. [Michigan State Univ., East La↗

Interactive Unmanned Aircraft System (UAS) Security Workshop

The goal of this workshop is to role play and walk through various UAS incursion scenarios to: 1. Recognize the complex interactions between physical protection, response, and UAS technologies in a nuclear security event; 2. Identify potential regulatory and legal complications dealing with UAS as aircraft; 3. Identify communication/coordination touch points with facility security and law enforcement; 4. Identify possible physical security and response strategies to help mitigate UAS impact.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

Weighing the Future: Strategic Options for U.S. Space Nuclear Leadership

We believe in speed, strength, and sovereignty. The government’s job is to unlock private sector investment, not micromanage it. Our approach shifts from endless studies to operational deployment, from bureaucratic gridlock to clear timelines and accountability. If done right, this strategy will unleash private capital, create high-tech American jobs, and put the United States back in the lead, not just in space, but in the future of energy and defense.

22 - GENERAL STUDIES OF NUCLEAR REACTORS↗

Towards Secure Autonomous Vehicles: An Integrated Edge and Multi-Modal Machine Learning Framework for Intrusion Detection

Autonomous vehicles (AVs) are vulnerable to cyberattacks targeting both internal communication networks and external perception sensors. While edge-based intrusion de- tection for Controller Area Network (CAN) buses offers real-time protection, it cannot detect cross-modal threats. Conversely, multi-modal fusion approaches improve coverage but often lack efficiency for in-vehicle deployment. This thesis integrates two complemen- tary solutions: (1) a lightweight, edge-deployable machine learning framework for CAN bus intrusion detection, and (2) a late-fusion system combining CAN FD and LiDAR data. Together, they form a hierarchical defense capable of handling single-modality and coordi- nated attacks. Simulations show that CAN-only models reach 93% accuracy on simulated DoS, spoofing, replay, and fuzzy attacks, while the fusion system achieves 0.87 AUC and 0.82 F1-score at 2 ms latency. This unified framework establishes a scalable, explainable, and field-ready strategy for AV cybersecurity.

97 MATHEMATICS AND COMPUTING↗

Mars Extant Life: What's Next? Conference Report

On November 5–8, 2019, the ‘‘Mars Extant Life: What’s Next?’’ conference was convened in Carlsbad, New Mexico. The conference gathered a community of actively publishing experts in disciplines related to habitability and astrobiology. Primary conclusions are as follows: A significant subset of conference attendees concluded that there is a realistic possibility that Mars hosts indigenous microbial life. A powerful theme that permeated the conference is that the key to the search for martian extant life lies in identifying and exploring refugia (‘‘oases’’), where conditions are either permanently or episodically significantly more hospitable than average. Based on our existing knowledge of Mars, conference participants highlighted four potential martian refugium (not listed in priority order): Caves, Deep Subsurface, Ices, and Salts. The conference group did not attempt to reach a consensus prioritization of these candidate environments, but instead felt that a defensible prioritization would require a future competitive process. Within the context of these candidate environments, we identified a variety of geological search strategies that could narrow the search space. Additionally, we summarized a number of measurement techniques that could be used to detect evidence of extant life (if present). Again, it was not within the scope of the conference to prioritize these measurement techniques—that is best left for the competitive process. We specifically note that the number and sensitivity of detection methods that could be implemented if samples were returned to Earth greatly exceed the methodologies that could be used at Mars. Finally, important lessons to guide extant life search processes can be derived both from experiments carried out in terrestrial laboratories and analog field sites and from theoretical modeling.

79 ASTRONOMY AND ASTROPHYSICS↗

Efforts to enhance reproducibility in a human performance research project

Background: Ensuring the validity of results from funded programs is a critical concern for agencies that sponsor biological research. In recent years, the open science movement has sought to promote reproducibility by encouraging sharing not only of finished manuscripts but also of data and code supporting their findings. While these innovations have lent support to third-party efforts to replicate calculations underlying key results in the scientific literature, fields of inquiry where privacy considerations or other sensitivities preclude the broad distribution of raw data or analysis may require a more targeted approach to promote the quality of research output. Methods: We describe efforts oriented toward this goal that were implemented in one human performance research program, Measuring Biological Aptitude, organized by the Defense Advanced Research Project Agency's Biological Technologies Office. Our team implemented a four-pronged independent verification and validation (IV&V) strategy including 1) a centralized data storage and exchange platform, 2) quality assurance and quality control (QA/QC) of data collection, 3) test and evaluation of performer models, and 4) an archival software and data repository. Results: Our IV&V plan was carried out with assistance from both the funding agency and participating teams of researchers. QA/QC of data acquisition aided in process improvement and the flagging of experimental errors. Holdout validation set tests provided an independent gauge of model performance. Conclusions: In circumstances that do not support a fully open approach to scientific criticism, standing up independent teams to cross-check and validate the results generated by primary investigators can be an important tool to promote reproducibility of results.

59 BASIC BIOLOGICAL SCIENCES↗

Artificial Diversity and Defense Security (ADDSec)

Artificial Diversity and Defense Security (ADDSec) machine learning algorithms are used to classify and cluster threats so that an appropriate response can be initiated as a mitigation strategy. The package includes an ensemble of machine learning algorithms such as Support Vector Machines, naïve bayes, logistic regression, and random forest that evolve with the data to recognize anomalous behavior at the host and network levels. Inputs into the machine learning algorithms include end host system calls, system utilization, packet captures, and syslog messages. The machine learning algorithms can be retrained based on user defined intervals or on the number of packets received. ADDSEC's threat responses include Internet Protocol (IP) Address randomization, application port number randomization, and application library randomization. The IP randomization implementation is built on top of a Software Defined Networking (SDN) framework. The SDN controller installs flows on each of the SDN switches with randomized source and destination IP addresses. The application port numbers are randomized using iptables. The application library randomization is created with a LLVM compiler. All randomization schemes are transparent to the endpoints on the network. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525. SAND2021-3379 O

Cox, RebeccaE.↗

Data-Based Resilience Enhancement Strategies for Electric-Gas Systems Against Sequential Extreme Weather Events

Some extreme weather events, such as the hurricane, pass through an area sequentially and thus are called sequential extreme weather events (SEWEs). This paper proposes a data-based robust optimization (RO) model to enhance the resilience of the integrated electricity and gas system (IEGS) against SEWEs. Specifically, the SEWE strikes the IEGS sequentially. After each attack, the system state is adjusted immediately to minimize the maximized expected system cost caused by the SEWE. The attack-defense procedures are repeated alternatively during the SEWE. Preventive measures, hardening, are made in advance to reduce the impact of sequential attacks. The entire process is formulated as a multi-period RO model. Furthermore, it is proved that the most effective resilience enhancement strategies for this model are the same as those for a two-stage RO model, which can be solved by the nested column-and-constraint generation (C&CG) algorithm. In addition, the property of SEWEs, sequentially endangering limited regions of the IEGS, is incorporated to build a data-based uncertainty set and reduce its conservativeness. Simulation results on two IEGSs validate the effectiveness of the proposed model.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Optimizing Ventilation Using Low-Cost Sensors to Improve Health, Safety, and Energy Efficiency

Air is the primary carrier of hazards within a space, whether it be hazardous byproducts of laboratory research activities or airborne pathogens. As a result, building ventilation is a primary defense against unseen airborne hazards. Critical laboratory facilities require effective mitigation of exposure to research-related, airborne hazards, providing a proving ground for effective ventilation strategies that optimize safety of occupants and reduce energy use. The heart of smart laboratory building operation is dynamic, analytics-based ventilation, which requires an in-depth intimate knowledge of building environmental conditions achieved through contaminant-detection systems. Unfortunately, currently many contaminant-detection solutions are expensive, elaborate systems that raise barriers for building managers. Through the successful deployment of a novel low-cost, modular sensor technology, we have developed a demand-control ventilation protocol effective in improving safety and reducing energy in critical laboratory environments. In this article, we will highlight best practices and lessons learned through this deployment that can be applied beyond laboratories. This article describes a low-cost sensor to support providing a safe, healthy building environment and reduce energy use through effective and efficient ventilation.

dynamic management of indoor air quality↗

Proposed Products to Support Shelter-Evacuation Decision Making in the Event of a Nuclear Detonation

Response strategies implemented in the first few hours to days after a nuclear detonation on the US homeland may save more than 100,000 lives. Effective planning and pre-event capability development can increase the response efficacy and so the number of lives saved. During such an event, the US Department of Defense, Joint Task Force Civil Support (DoD JTF-CS) provides command and control for the DoD forces supporting civil authority response operations. Among other activities, JTF-CS expects to support FEMA as well as State and local agencies in shelter and evacuation response activities. JTF-CS currently uses a manual method to generate evacuation decision making products. This method compares the dose that would be (a) acquired remaining at a given location to that (b) acquired during evacuation along a small number of routes. In these products, evacuation may be warranted when the projected “remain” dose is greater than the “evacuate” dose. This method only provides a limited consideration of the protection buildings provide their occupants. To inform the JTF-CS nuclear detonation response, the DoD Defense Threat Reduction Agency (DTRA) has tasked Lawrence Livermore National Laboratory (LLNL) to design a set of planning and response products to support shelter-evacuation activities. This report documents these products to facilitate DTRA and JTF-CS planning efforts. To provide context, we also provide appendices that summarize US planning guidance response zones, early (<72 h) response strategies, and other key topics.

61 RADIATION PROTECTION AND DOSIMETRY↗

Past Approaches for Spent Nuclear Fuel, High-Level, and Transuranic Waste Disposal in the United States—Part 1: Safety Criteria and Treatment of Uncertainty

The United States (US), with its 50-year experience in developing deep geologic disposal for transuranic waste, spent nuclear fuel (SNF), and high-level radioactive waste (HLW), has much to share with other countries. Yet, other countries are better able to translate the US experience and corresponding policy decisions into solutions sensible for their country when they understand the compliance requirements in US laws and regulations. This paper presents past approaches in the generic and site-specific standards of the US Environmental Protection Agency (EPA) and implementing regulations of the US Nuclear Regulatory Commission (NRC) using the framework provided by (1) key questions of the Blue Ribbon Commission on America’s Nuclear Future, and (2) international consensus standards. Both the 1985 EPA generic standards, as updated in 1993 and applied at the operating Waste Isolation Pilot Plant in southern New Mexico for transuranic waste from atomic energy defense activities, and the EPA 2008 site-specific standards and implementing regulations, as applied at the proposed Yucca Mountain repository in southern Nevada for SNF and HLW, adopt the strategy of using quantitative, probabilistic analysis to assess performance and compliance.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗