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DOE OSTI2025

Gene network centrality analysis identifies key regulators coordinating day-night metabolic transitions in Synechococcus elongatus PCC 7942 despite limited accuracy in predicting direct regulator-gene interactions

Synechococcus elongatus PCC 7942 is a model organism for studying circadian regulation and bioproduction, where precise temporal control of metabolism significantly impacts photosynthetic efficiency and CO 2 -to-bioproduct conversion. Despite extensive research on core clock components, our understanding of the broader regulatory network orchestrating genome-wide metabolic transitions remains incomplete. We address this gap by applying machine learning tools and network analysis to investigate the transcriptional architecture governing circadian-controlled gene expression. While our approach showed moderate accuracy in predicting individual transcription factor-gene interactions - a common challenge with real expression data - network-level topological analysis successfully revealed the organizational principles of circadian regulation. Our analysis identified distinct regulatory modules coordinating day-night metabolic transitions, with photosynthesis and carbon/nitrogen metabolism controlled by day-phase regulators, while nighttime modules orchestrate glycogen mobilization and redox metabolism. Through network centrality analysis, we identified potentially significant but previously understudied transcriptional regulators: HimA as a putative DNA architecture regulator, and TetR and SrrB as potential coordinators of nighttime metabolism, working alongside established global regulators RpaA and RpaB. This work demonstrates how network-level analysis can extract biologically meaningful insights despite limitations in predicting direct regulatory interactions. The regulatory principles uncovered here advance our understanding of how cyanobacteria coordinate complex metabolic transitions and may inform metabolic engineering strategies for enhanced photosynthetic bioproduction from CO 2 .

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2019

Oriented porous LLZO 3D structures obtained by freeze casting for battery applications

All solid-state lithium batteries are, potentially, higher energy density and safer alternatives to conventional lithium-ion batteries (LIBs). These are particularly attractive characteristics for large-scale applications such as electric vehicles and grid energy storage systems. However, the thin film deposition techniques used to make current devices are not readily scalable, and result in low areal capacities, which translate to low practical energy densities. To overcome these deficiencies, it is necessary to design thicker electrodes similar to what are used in LIBs (30–100 μm), in which the active material is composited with an ionic conductor and an electronically conducting additive, to overcome transport limitations. In this paper, we propose a method for making such an electrode, starting with a porous scaffold, i.e. Li 7 La 3 Zr 2 O 12 (LLZO), made by freeze casting, which is then infiltrated with the active material LiNi 0.6 Mn 0.2 Co 0.2 O 2 (NMC-622) and other components. The freeze casting technique results in the formation of oriented channels with low tortuosity, which run roughly parallel to the direction of the current. The scaffolds were characterized with synchrotron X-ray micro-tomography for structural analysis, as well as synchrotron X-ray fluorescence to map the elemental distribution in the infiltrated composite. A hybrid half-cell was constructed and cycled as proof of principle, and it showed good stability. In addition, a bilayer structure consisting of a porous layer combined with a dense LLZO film was successfully made as a prototype of an all solid-state battery. Finally, a mathematical model was established to propose optimized scaffold structures for battery performance.

25 ENERGY STORAGE↗

NASA NTRS1987

Atmospheric reentry of the in-core thermionic SP-100 reactor system

Presumed end-of-life atmospheric reentry of the GA SP-100 system was studied to assess dispersal feasibility and associated hazards. Reentry was studied by sequential use of an orbital trajectory and a heat analysis computer program. Two heating models were used. The first model assumed a thermal equilibrium condition between the stagnation point aerodynamic heating and the radiative cooling of the skin material surface. The second model allowed for infinite conductivity of the skin material. Four reentering configurations were studied representing stages of increased SP-100 breakup: (1) radiator, shield and reactor, (2) shield and reactor, (3) reactor with control drums, and (4) reactor without control drums. Each reentering configuration was started from a circular orbit at 116 km having an inertial velocity near Mach 25. The assumed failing criterion was the attainment of melting temperature of a critical system component. The reentry analysis revealed breakup of the vessel in the neighborhood of 61 km altitude and scattering of the fuel elements. Subsequent breakup of the fuel elements was not predicted. Oxidation of the niobium skin material was calculated to cause an increase in surface temperature of less than ten percent. The concept of thermite analogs for enhancing reactor reentry dispersal was assessed and found to be feasible in principle. A conservative worst-case hazards analysis was performed for radioactive and nonradioactive toxic SP-100 materials assumed to be dispersed during end-of-life reentry. The hazards associated with this phase of the SP-100 mission were calculated to be insignificant.

Stamatelatos, M. G.↗

NASA NTRS2011

Principles, Techniques, and Applications of Tissue Microfluidics

The principle of tissue microfluidics and its resultant techniques has been applied to cell analysis. Building microfluidics to suit a particular tissue sample would allow the rapid, reliable, inexpensive, highly parallelized, selective extraction of chosen regions of tissue for purposes of further biochemical analysis. Furthermore, the applicability of the techniques ranges beyond the described pathology application. For example, they would also allow the posing and successful answering of new sets of questions in many areas of fundamental research. The proposed integration of microfluidic techniques and tissue slice samples is called tissue microfluidics because it molds the microfluidic architectures in accordance with each particular structure of each specific tissue sample. Thus, microfluidics can be built around the tissues, following the tissue structure, or alternatively, the microfluidics can be adapted to the specific geometry of particular tissues. By contrast, the traditional approach is that microfluidic devices are structured in accordance with engineering considerations, while the biological components in applied devices are forced to comply with these engineering presets. The proposed principles represent a paradigm shift in microfluidic technology in three important ways: Microfluidic devices are to be directly integrated with, onto, or around tissue samples, in contrast to the conventional method of off-chip sample extraction followed by sample insertion in microfluidic devices. Architectural and operational principles of microfluidic devices are to be subordinated to suit specific tissue structure and needs, in contrast to the conventional method of building devices according to fluidic function alone and without regard to tissue structure. Sample acquisition from tissue is to be performed on-chip and is to be integrated with the diagnostic measurement within the same device, in contrast to the conventional method of off-chip sample prep and subsequent insertion into a diagnostic device. A more advanced form of tissue integration with microfluidics is tissue encapsulation, wherein the sample is completely encapsulated within a microfluidic device, to allow for full surface access. The immediate applications of these approaches lie with diagnostics of tissue slices and biopsy samples e.g. for cancer but the approaches would also be very useful in comparative genomics and other areas of fundamental research involving heterogeneous tissue samples.

Wade, Lawrence A.↗

DOE OSTI2023

Nonlinear saturation of whistler modes driven by runaway electrons

Runaway electrons exhibit kinetic instabilities with potentially beneficial consequences. The anomalous Doppler resonance between the electrons and whistler modes is a primary underlying mechanism. These instabilities require a first-principle nonlinear theoretical analysis, which would ultimately enable assessment of their impact on disruption mitigation and diagnostics, especially in ITER-relevant conditions. This paper presents recent progress in developing the required theoretical framework for isolated nonlinear resonances. By employing the generic bump-on-tail model, we predict the wave saturation levels in both near-threshold and strongly driven regimes. Remarkably, for the waves of interest, the parallel component of the wave vector dictates the parallel momentum of the resonant particles. This feature, together with the expected wave saturation level, provides a complete description of the resonance impact on the runaway electron distribution function. We show that the parametric dependence of the nonlinearly saturated mode provides a way to recover certain features of the runaway momentum distribution function.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

NASA NTRS1987

An efficient quadrilateral element for plate bending analysis

A simple, shear flexible, quadrilateral plate element is developed based on the Hellinger/Reissner mixed variational principle with independently assumed displacement and stress fields. The crucial point of the selection of appropriate stress parameters is emphasized in the formulation. For this purpose, a set of guidelines is formulated based on the follwoing considerations: (1) suppression of all kinematic deformation modes, (2) the element has a favorable value for the constraint index in the thin plate limit, and (3) element properties are frame-invariant. For computer implementation the components of the element stiffness matrix are evaluated analytically using the symbolic manipulation package MACSYMA. The effectiveness and practical usefulness of the proposed element are demonstrated by the numerical results of a variety of problems involving thin and moderately thick plates under different loading and support conditions.

Saleeb, A. F.↗

DOE OSTI2023

Oxygen redox and instability in energy ceramics

Energy ceramics, including solid electrolytes and catalysts for high-temperature fuel/electrolysis cells and oxide cathodes for batteries, often experience harsh chemical and electrochemical conditions. Practical and new applications require that these devices are operated under ever more extreme redox conditions for higher energy density and power density. This challenges the stability of the energy ceramic materials and calls for a better understanding of the degradation mechanisms and innovative strategies for degradation mitigation. Here we present our analysis and perspectives on degradation phenomena in three categories of electrochemical devices of practical interest, including solid oxide fuel/electrolysis cells, protonic ceramic fuel/electrolysis cells, and lithium-ion batteries. We also discuss the stability/degradation of the key ceramic components from the view of oxygen redox and instability arising from anodic bias, transport limitation, and coupled electro-chemo-mechanics at the virtual and physical interfaces. We hope these perspectives provide design principles for electroceramic chemistry, microstructure, and processing.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2019

Variational quantum state diagonalization

Abstract Variational hybrid quantum-classical algorithms are promising candidates for near-term implementation on quantum computers. In these algorithms, a quantum computer evaluates the cost of a gate sequence (with speedup over classical cost evaluation), and a classical computer uses this information to adjust the parameters of the gate sequence. Here we present such an algorithm for quantum state diagonalization. State diagonalization has applications in condensed matter physics (e.g., entanglement spectroscopy) as well as in machine learning (e.g., principal component analysis). For a quantum state ρ and gate sequence U , our cost function quantifies how far $$U\rho U^\dagger$$ U ρ U † is from being diagonal. We introduce short-depth quantum circuits to quantify our cost. Minimizing this cost returns a gate sequence that approximately diagonalizes ρ . One can then read out approximations of the largest eigenvalues, and the associated eigenvectors, of ρ . As a proof-of-principle, we implement our algorithm on Rigetti’s quantum computer to diagonalize one-qubit states and on a simulator to find the entanglement spectrum of the Heisenberg model ground state.

97 MATHEMATICS AND COMPUTING↗

NASA NTRS2004

Microbial astronauts: assembling microbial communities for advanced life support systems

Extension of human habitation into space requires that humans carry with them many of the microorganisms with which they coexist on Earth. The ubiquity of microorganisms in close association with all living things and biogeochemical processes on Earth predicates that they must also play a critical role in maintaining the viability of human life in space. Even though bacterial populations exist as locally adapted ecotypes, the abundance of individuals in microbial species is so large that dispersal is unlikely to be limited by geographical barriers on Earth (i.e., for most environments "everything is everywhere" given enough time). This will not be true for microbial communities in space where local species richness will be relatively low because of sterilization protocols prior to launch and physical barriers between Earth and spacecraft after launch. Although community diversity will be sufficient to sustain ecosystem function at the onset, richness and evenness may decline over time such that biological systems either lose functional potential (e.g., bioreactors may fail to reduce BOD or nitrogen load) or become susceptible to invasion by human-associated microorganisms (pathogens) over time. Research at the John F. Kennedy Space Center has evaluated fundamental properties of microbial diversity and community assembly in prototype bioregenerative systems for NASA Advanced Life Support. Successional trends related to increased niche specialization, including an apparent increase in the proportion of nonculturable types of organisms, have been consistently observed. In addition, the stability of the microbial communities, as defined by their resistance to invasion by human-associated microorganisms, has been correlated to their diversity. Overall, these results reflect the significant challenges ahead for the assembly of stable, functional communities using gnotobiotic approaches, and the need to better define the basic biological principles that define ecosystem processes in the space environment. Copyright 2004 Springer-Verlag.

Review↗

NASA NTRSDate not supplied

Developing a Vision for Maturing the Heliophysics Infrastructure towards Open Science: The DIARieS Analysis Ecosystem

In the dawn of open science and the upcoming requirements, we speak about the existing state of Heliophysics infrastructure and detail the evolution required to address capability or interconnection shortcomings. Such a daunting barrier calls for an analysis ecosystem with multi-faceted capability. We propose such an ecosystem, called DIARieS, to be built upon five conceptual pillars: Discovery, Implementation, Analysis, Reproducibility, and Sharing of results. The combination of these concepts in a single platform will enable users to more intuitively combine recent advances in technology to create ‘DIARieS’ of their workflows, which can be easily made open to others in the community. The DIARieS ecosystem will also increase our efficiency by streamlining our various workflow processes, including automatic incorporation of the impending requirements of open science. The various components of the ecosystem will simplify software installation and data implementation, including automatically generated citation lists based on the components included. Automatic containerization and version control of the ecosystem will make the custom workflows easily reproducible. Employing widget technology will ease the difficulty of producing publication and commercial quality visualizations and applying common analyses techniques. Incorporating multiple technologies will streamline the various sharing methods common in our work environments today. Overall, the totality of capabilities to be offered by this analysis ecosystem will drastically simplify the application of open science principles to our work in addition to improving our efficiency and ease of collaboration. This talk summarizes a vision of the proposed ecosystem, which is described in more detail in Ringuette et al. (2022: https://doi.org/10.1016/j.asr.2022.05.012).

infrastructure↗

NASA NTRSDate not supplied

Developing a Vision for Maturing the Heliophysics Infrastructure towards Open Science

Infrastructure↗

NASA NTRS2005

A Concept for the Inclusion of Analytical and Computational Capability in Existing Systems for Measurement of Neutron Flux

For approximately two decades, efforts have been sponsored by NASA's Marshall Space Flight Center to make possible high-speed, automated classification and quantification of constituent materials in various harsh environments. MSFC, along with the Air Force/Arnold Engineering Development Center, has led the work, developing and implementing systems that employ principles of emission and absorption spectroscopy to monitor molecular and atomic particulates in gas plasma of rocket engine flow fields. One such system identifies species and quantifies mass loss rates in H2/O2 rocket plumes. Other gases have been examined and the physics of their detection under numerous conditions were made a part of the knowledge base for the MSFC/USAF team. Additionally, efforts are being advanced to hardware encode components of the data analysis tools in order to address real-time operational requirements for health monitoring and management. NASA has a significant investment in these systems, warranting a spiral approach that meshes current tools and experience with technological advancements. This paper addresses current systems - the Optical Plume Anomaly Detector (OPAD) and the Engine Diagnostic Filtering System (EDIFIS) - and discusses what is considered a natural progression: a concept for migrating them towards detection of high energy particles, including neutrons and gamma rays. The proposal outlines system development to date, basic concepts for future advancements, and recommendations for accomplishing them.

Patrick, Clinton↗

DOE OSTI2021

Integrated system failure analysis software toolchain (IS-FAST)

Systems and methods are provided for generating faults and analyzing fault propagation and its effects. Starting from the ontologies of components, functions, flows, and faults, systems and methods are provided that describe, generate and track faults in a computer system across multiple domains throughout design and/or development. In order to construct the system and fault models, a series of concepts is introduced in the form of ontologies and their dependencies. An investigation is performed into the faults, including their type, cause, life-cycle aspects, and effect. Principles and rules are created to generate various faults based on system configurations. After the modeling process, a simulation engine is described to execute actions and simulate the process of fault generation and propagation. As a result, fault paths that impact components and functions can be obtained.

Diao, Xiaoxu↗

DOE OSTI2021

Performance and Durability of Pure-Water-Fed Anion Exchange Membrane Electrolyzers Using Baseline Materials and Operation

Water electrolysis powered by renewable electricity produces green hydrogen and oxygen gas, which can be used for energy, fertilizer, and industrial applications and thus displace fossil fuels. Pure-water anion-exchange-membrane (AEM) electrolyzers in principle offer the advantages of commercialized proton-exchange-membrane systems (high current density, low cross over, output gas compression, etc.) while enabling the use of less-expensive steel components and nonprecious metal catalysts. AEM electrolyzer research and development, however, has been limited by the lack of broadly accessible materials that provide consistent cell performance, making it difficult to compare results across studies. Further, even when the same materials are used, different pretreatments and electrochemical analysis techniques can produce different results. Here, we report an AEM electrolyzer comprising commercially available catalysts, membrane, ionomer, and gas-diffusion layers operating near 1.9 V at 1 A cm –2 in pure water. After the initial break in, the performance degraded by 0.67 mV h –1 at 0.5 A cm –2 at 55 °C. We detail the key preparation, assembly, and operation techniques employed and show further performance improvements using advanced materials as a proof-of-concept for future AEM-electrolyzer development. Here, the data thus provide an easily reproducible and comparatively high-performance baseline that can be used by other laboratories to calibrate the performance of improved cell components, nonprecious metal oxygen evolution, and hydrogen evolution catalysts and learn how to mitigate degradation pathways.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2025

A Portable Wave Tank and Wave Energy Converter for Engineering Dissemination and Outreach

Wave energy converters are a nascent energy generation technology that harnesses the power in ocean waves. To assist in communicating both fundamental and complex concepts of wave energy, a small-scale portable wave tank and wave energy converter have been developed. The system has been designed using commercial off-the-shelf components, and all design hardware and software are openly available for replication. This project builds on prior research conducted at Sandia National Laboratories, particularly in the areas of WEC device design and control systems. By showcasing the principles of causal feedback control and innovative device design, SIWEED not only serves as a practical demonstration tool but also enhances the educational experience for users. This paper presents the detailed system design of this tool. Furthermore, via testing and analysis, we demonstrate the basic functionality of the system.

educational↗

DOE OSTI2025

Preliminary Study on Fine-Grained Power and Energy Measurements on Grace Hopper GH200 with Open-Source Performance Tools

The increasing adoption of tightly integrated, heterogeneous architectures, combined with the slowdown of Moore’s law, has made application power and energy-driven optimizations critical to efficiently use high-performance computing systems. This paper introduces a newly developed open-source toolkit that seamlessly integrates the Linux real-time hardware monitoring program hwmon with the Performance Application Programming Interface and the Score-P performance measurement system, thereby enabling fine-grained power and energy measurements for high-performance computing applications. Our primary target platform is the Wombat test bed, which is a system based on the NVIDIA GH200 superchip. The toolkit can capture transient power peaks with high temporal resolution (50 ms) and, thanks to Score-P integration, can map power metrics to specific code regions, thereby providing actionable information on power-intensive operations and inefficiencies. The toolkit also provides a holistic view of both the power and the energy consumption of the entire GH200 superchip by covering all major components: the Grace CPU, the Hopper GPU, and the I/O subsystem. Experiments that use Locally Self-consistent Multiple Scattering, which is an application for first-principles calculations of materials developed at Oak Ridge National Laboratory, have demonstrated the tool’s ability to identify transient power spikes and uncover opportunities for energy-aware optimizations. Additionally, we introduce a Python-based utility for converting Open Trace Format 2 traces to Parquet format, thus enabling advanced data analysis for numerical integration methods applied to power data for accurate energy profiling.

Hernandez Mendoza, Oscar [ORNL] (ORCID:00000002538↗

NASA NTRS1994

Synthesis of line profiles from models of structured winds

On the basis of a careful analysis of resonance line formation (both for singlets and doublets) in structured winds, present time dependent models of the line driven winds of hot stars are shown to be able to explain a number of observational features with respect to variability and structure: they are (in principle) able to reproduce the black and broad troughs (without any artificial 'turbulence velocity') and the 'blue edge variability' observed in saturate resonance lines: they might explain the 'long lived narrow absorption components' often observed in unsaturated lines at high velocities; they predict a relation between the 'edge velocity' of UV-lines and the radiation temperature of the observed X-ray emission. As a first example of the extent to which theoretical models can be constrained by comparisons between observations and profiles calculated by spectrum synthesis from structured winds, we show here that models with deep-seated onset of structure formation (approximately greater than 1.1 R(sub *)) produce resonance lines which agree qualitatively with observational findings; in contrast, the here presented models with structure formation only well out in the wind (approximately greater than 1.6 R(sub *) fail in this respect.

Puls, J.↗

DOE OSTI2025

Developing a Nuclear Quality Assurance Compliant Design Methodology for Neutronic Analysis of Xe-100 Design

The primary objective of this work is to develop a design methodology compliant with nuclear quality assurance standards for the Xe-100 neutronic design verification studies. To achieve this, a Monte Carlo model of the Xe-100 reactor was constructed using the exclusion principle, transformation technique, and universe-based level specification following Idaho National Laboratory (INL) NQA level-1 compliant standards and an NQA-1 compliant version of MCNP6. The model encompasses the entire reactor core structures, including the upper plenum, core region, and lower plenum sections, along with all sub-components. The active core section was represented using the spectral regions, each comprising a particular fuel composition and temperature averaged over the considered zone, calculated by X-energy using Very Superior Old Programs (VSOP). Additionally, a component-wise temperature map was implemented into the model, not only for the core region but also for the structural components. Temperature-dependent cross-section libraries, along with thermal scattering law libraries, generated using INL NQA-1 compliant version of NJOY21, were utilized for each isotope in the burnt fuel and the structural materials. Furthermore, the volume of each modeled component was estimated using a stochastic approach with the ray tracing method in MCNP and criticality calculations were performed.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗