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DOE OSTI2024

Anatomy of a mega‐radiation: Biogeography and niche evolution in Astragalus

Premise Astragalus (Fabaceae), with more than 3000 species, represents a globally successful radiation of morphologically highly similar species predominant across the northern hemisphere. It has attracted attention from systematists and biogeographers, who have asked what factors might be behind the extraordinary diversity of this important arid-adapted clade and what sets it apart from close relatives with far less species richness. Methods Here, for the first time using extensive phylogenetic sampling, we asked whether (1) Astragalus is uniquely characterized by bursts of radiation or whether diversification instead is uniform and no different from closely related taxa. Then we tested whether the species diversity of Astragalus is attributable specifically to its predilection for (2) cold and arid habitats, (3) particular soils, or to (4) chromosome evolution. Finally, we tested (5) whether Astragalus originated in central Asia as proposed and (6) whether niche evolutionary shifts were subsequently associated with the colonization of other continents. Results Our results point to the importance of heterogeneity in the diversification of Astragalus, with upshifts associated with the earliest divergences but not strongly tied to any abiotic factor or biogeographic regionalization tested here. The only potential correlate with diversification we identified was chromosome number. Biogeographic shifts have a strong association with the abiotic environment and highlight the importance of central Asia as a biogeographic gateway. Conclusions Our investigation shows the importance of phylogenetic and evolutionary studies of logistically challenging “mega-radiations.” Our findings reject any simple key innovation behind high diversity and underline the often nuanced, multifactorial processes leading to species-rich clades.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2026

Latent space dynamics identification for interface tracking with application to shock-induced pore collapse

Capturing sharp, evolving interfaces remains a central challenge in reduced-order modeling, especially when data is limited and the system exhibits localized nonlinearities or discontinuities. Here, we propose LaSDI-IT (Latent Space Dynamics Identification for Interface Tracking), a data-driven framework that combines low-dimensional latent dynamics learning with explicit interface-aware encoding to enable accurate and efficient modeling of physical systems involving moving material boundaries. At the core of LaSDI-IT is a revised autoencoder architecture that jointly reconstructs the physical field and an indicator function representing material regions or phases, allowing the model to track complex interface evolution without requiring detailed physical models or mesh adaptation. The latent dynamics are learned through linear regression in the encoded space and generalized across parameter regimes using Gaussian process interpolation with greedy sampling. We demonstrate LaSDI-IT on the problem of shock-induced pore collapse in high explosives, a process characterized by sharp temperature gradients and dynamically deforming pore geometries. The method achieves relative prediction errors below 9% across the parameter space, accurately recovers key quantities of interest such as pore area and hot spot formation, and matches the performance of dense training with only half the data. This latent dynamics prediction was 10 6 times faster than the conventional high-fidelity simulation, proving its utility for multi-query applications. These results highlight LaSDI-IT as a general, data-efficient framework for modeling discontinuity-rich systems in computational physics, with potential applications in multiphase flows, fracture mechanics, and phase change problems.

Gaussian process↗

DOE OSTI2023

Emergent Constrained Projections of Mean and Extreme Warming in China

Reliable regional temperature projections including heat extremes are essential for climate change adaptation and mitigation. Taking China as an example, simple averages from Coupled Model Intercomparison Project Phase 6 (CMIP6) models project high warming due to sampling many high climate sensitivities in the ensemble. Here, we develop an emergent constraint (EC) framework to obtain constrained mean and daily maximum temperature (TXx) warming over China by using observed global warming and local residual warming. The constrained annual mean and TXx warming over China (2.33°C [1.61–3.05°C] and 2.31°C [1.21–2.99°C]) are 0.65°C [0.04–1.76°C] and 0.63°C [–0.50–2.39°C], respectively, lower than raw projections (2.98°C [1.85–4.22°C] and 2.94°C [2.04–4.39°C]) for 2080–2099 under the intermediate-emission scenario. Approximately half model uncertainty is reduced after constraint. The land area (population) experiencing temperature extremes in our metric is 78% (85%) of the raw projections. Our results imply a lower impact of extreme heat than implied by current raw CMIP6 projections.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

An Edge Alignment-Based Orientation Selection Method for Neutron Tomography

Neutron computed tomography (nCT) is a 3D char-acterization technique used to image the internal morphology or chemical composition of samples in biology and materials sciences. A typical workflow involves placing the sample in the path of a neutron beam, acquiring projection data at a predefined set of orientations, and processing the resulting data using an analytic reconstruction algorithm. Typical nCT scans require hours to days to complete and are then processed using conventional filtered back-projection (FBP), which performs poorly with sparse views or noisy data. Hence, the main methods in order to reduce overall acquisition time are the use of an improved sampling strategy combined with the use of advanced reconstruction methods such as model-based iterative reconstruction (MBIR). In this paper, we propose an adaptive orientation selection method in which an MBIR reconstruction on previously-acquired measurements is used to define an objective function on orientations that balances a data-fitting term promoting edge alignment and a regularization term promoting orientation diversity. Using simulated and experimental data, we demonstrate that our method produces high-quality reconstructions using significantly fewer total measurements than the conventional approach.

Yang, Diyu↗

DOE OSTI2025

FIRE: A Failure-Adaptive RL Framework for Edge Computing Migrations

In edge computing, users' service profiles are migrated between edge servers due to user mobility. Reinforcement Learning (RL) frameworks have been proposed to do so, often trained on simulated data. However, existing RL frameworks overlook occasional server failures, which although rare, impact latency-sensitive applications like AR/VR and real- time obstacle detection. These rare failures, being not adequately represented in historical training data, pose a challenge for data-driven RL algorithms. We introduce FIRE, a framework that adapts to rare events by training a RL policy in an edge computing digital twin environment. We propose FIRE-ImRE, an importance sampling-based Q-learning algorithm, which samples rare events proportionally to their impact on the value function. FIRE considers delay, migration, failure, and backup placement costs across individual and shared service profiles. We prove FIRE-ImRE's boundedness and convergence to optimality. Next, we introduce novel deep Q-learning (FIRE-ImDQL) and actor critic (FIRE-ImACRE) versions of our algorithm to enhance scalability. Here, we extend our framework to accommodate users with varying risk tolerances of rare failure events. Through trace-driven experiments, we show that FIRE reduces edge computing costs compared to vanilla RL and the greedy baseline in the event of failures.

Edge computing↗

DOE OSTI2023

Using Ultrasonics to Optimize the Processing Parameters of Thermoset Polymers [Slides]

Ultrasonics is used as a non-destructive evaluation method to improve our understanding of polymers. Coupling ultrasonics and FTIR can help determine which bonds are more relevant to the mechanical properties of the polymer. Modeling the cure kinetics can determine if the curing process of a sample deviates from the baseline. Cure kinetics influence the final chemical structure of the polymer. This method opens a new pathway to design and adapt polymers for high demanding applications.

36 MATERIALS SCIENCE↗

DOE OSTI2020

Comparative Analysis of Microbial Diversity Across Temperature Gradients in Hot Springs From Yellowstone and Iceland

Geothermal hot springs are a natural setting to study microbial adaptation to a wide range of temperatures reaching up to boiling. Temperature gradients lead to distinct microbial communities that inhabit their optimum niches. We sampled three alkaline, high temperature (80–100°C) hot springs in Yellowstone and Iceland that had cooling outflows and whose microbial communities had not been studied previously. The microbial composition in sediments and mats was determined by DNA sequencing of rRNA gene amplicons. Over three dozen phyla of Archaea and Bacteria were identified, representing over 1700 distinct organisms. We observed a significant non-linear reduction in the number of microbial taxa as the temperature increased from warm (38°C) to boiling. At high taxonomic levels, the community structure was similar between the Yellowstone and Iceland hot springs. We identified potential endemism at the genus level, especially in thermophilic phototrophs, which may have been potentially driven by distinct environmental conditions and dispersal limitations.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

Mining Thermophile Photosynthesis Genes: A Synthetic Operon Expressing Chloroflexota Species Reaction Center Genes in Rhodobacter sphaeroides

Photosynthesis is the foundation of the vast majority of life systems, and is therefore the most important bioenergetic process on earth. The greatest diversity of photosynthetic systems is found in microorganisms. However, our understanding of the biophysical and biochemical processes that transduce light into chemical energy is derived from a relatively small subset of proteins from microbes that are amenable to cultivation, in contrast to the huge number of predicted proteins that catalyze the initial photochemical reactions deposited in databases, such as from metagenomics. We describe the use of a Rhodobacter sphaeroides laboratory strain for the expression of heterologous photosynthesis genes to demonstrate the feasibility of mining this resource, focusing on hot spring Chloroflexota gene sequences. Using a synthetic operon of genes, we produced a photochemically active complex of reaction center proteins in our biological system. We also present bioinformatic analyses of anoxygenic type II reaction center sequences from metagenomic samples collected from hot (42–90 °C) springs available through the JGI IMG database, to generate a resource of diverse sequences that are potentially adapted to photosynthesis at such temperatures. These data provide a view into the natural diversity of anoxygenic photosynthesis, through a lens focused on high-temperature environments. The approach we took to express such genes can be applied for potential biotechnology purposes as well as for studies of fundamental catalytic properties of these heretofore inaccessible protein complexes.

Chloroflexota↗

NASA NTRS1983

The effects of hypergravity on the rate of antibody formation in the rat

This experiment was designed to measure the immune response in acutely stressed and chronically centrifuged hyper-G-adapted male rats. Rats were exposed to 2.1 and 3.1 G. Acutely stressed animals were injected with sheep red blood cells (SRBC) on the day of inital exposure to hyper-G, and were chronically centrifuged for 10 to 15 days after immunization. Hyper-G-adapted rats were chronically centrifuged for 28 days prior to antigen injection and for 21 days after injection. Booster injections were given and serum samples taken at intervals from 3 to 9 days after the initial and booster injections. Antigen dose, injected ip, ranged between 1.35 x 10 to the 6th and 1.38 x 10 to the 9th SRBC/100 g. body weight. Pair-fed and ad libitum fed noncentrifuged controls were used. No significant differences in anti-SRBC antibody titers were found between centrifuged and control animals, although there were some changes in WBC counts and a significant increase in adrenal-gland size in acutely stressed animals.

Scibetta, S. M.↗

NASA NTRS1988

Diode laser harmonic spectroscopy applied to in situ measurements of atmospheric trace molecules

With the emergence of lead-salt diode laser technology, a broad and important IR spectral region, roughly 3-30 microns, became accessible to tunable laser spectroscopy. More recent advances in fabrication techniques have provided experimenters with relatively high power quasi-single-mode high-temperature lasers that are readily adapted to compact automated instruments for field experiments. An especially attractive capability of diode lasers is the ease of using them for simultaneous multiconstituent sampling in the atmosphere. This paper presents a summary description of field instruments for atmospheric research which employ diode lasers and second-harmonic detection. Representative results obtained with some of these instruments are presented.

Loewenstein, Max↗

NASA NTRS1991

On the optimality of code options for a universal noiseless coder

A universal noiseless coding structure was developed that provides efficient performance over an extremely broad range of source entropy. This is accomplished by adaptively selecting the best of several easily implemented variable length coding algorithms. Custom VLSI coder and decoder modules capable of processing over 20 million samples per second are currently under development. The first of the code options used in this module development is shown to be equivalent to a class of Huffman code under the Humblet condition, other options are shown to be equivalent to the Huffman codes of a modified Laplacian symbol set, at specified symbol entropy values. Simulation results are obtained on actual aerial imagery, and they confirm the optimality of the scheme. On sources having Gaussian or Poisson distributions, coder performance is also projected through analysis and simulation.

Yeh, Pen-Shu↗

NASA NTRS1990

Space Station Payload Adaptation System

The development and design of a system of containers for the efficient integration of Space Station payloads is described called the Space Station Payload Adaptation System (SSPAS). The SSPAS was developed to address the incorporation of multiple payloads, the use of a small payload carrier, large numbers of samples, and on-orbit servicing. SSPAS subsystems such as the Spacelab rack are modular and designed for integration into the 'Quick Is Beautiful' (QIB) facility. The QIB is designed to provide access to space for small- and medium-sized microgravity research projects and proof-of-concept investigations. The power-distribution and heat-rejection potential of the QIB are described, and an improved experiment-apparatus container is proposed. The SSPAS rack-mounting and container concepts are concluded to make up an efficent system that can effectively exploit the R&D potential of the Space Station.

Taylor, Kenneth R.↗

NASA NTRS1986

Radiation Sensor

Claypack is a cost-effective portable system developed by Barringer Research Ltd. for rapid on-site analysis of clay minerals. It is an adaptation of a hand-held rationing radiometer. By measuring the intensity of reflected radiation, the device discriminates among different minerals present in a sample. It simultaneously analyzes radiation intensities in two separate bands of the spectrum, and calculates the ratio of one to the other. The "reflectance ratio" is computer processed and displayed in digital form.

Source record↗

NASA NTRS2000

Adaptive Detector Arrays for Optical Communications Receivers

The structure of an optimal adaptive array receiver for ground-based optical communications is described and its performance investigated. Kolmogorov phase screen simulations are used to model the sample functions of the focal-plane signal distribution due to turbulence and to generate realistic spatial distributions of the received optical field. This novel array detector concept reduces interference from background radiation by effectively assigning higher confidence levels at each instant of time to those detector elements that contain significant signal energy and suppressing those that do not. A simpler suboptimum structure that replaces the continuous weighting function of the optimal receiver by a hard decision on the selection of the signal detector elements also is described and evaluated. Approximations and bounds to the error probability are derived and compared with the exact calculations and receiver simulation results. It is shown that, for photon-counting receivers observing Poisson-distributed signals, performance improvements of approximately 5 dB can be obtained over conventional single-detector photon-counting receivers, when operating in high background environments.

Vilnrotter, V.↗

NASA NTRSDate not supplied

Kamodo’s Satellite Constellation Mission Planning Tool

Kamodo provides a functional model-agnostic interface to a growing collection of Heliophysics model outputs. The CCMC, in collaboration with the Geospace Dynamics Constellation Science Team, has recently developed Kamodo’s satellite constellation mission planning tool to perform reconstructions in any pair of dimensions, including time. The ‘reconstruction’ tool enables users to fly any 4-dimensional grid of satellites through a given model data set, reconstructing what the given constellation would observe during the mission. This capability facilitates determination of what satellite configuration is best for a given science question, even allowing comparison across multiple models. This tool, written in Python, is built upon Kamodo’s flythrough tool, which in turn depends on a growing network of model-specific interfaces. Since each model interface is designed with model-agnostic syntax, the flythrough tool and the satellite constellation mission planning tool also feature model-agnostic syntax. In this work, we will describe the basic analysis choices available in the tool and provide a variety of sample workflows. The tool is freely available at https://github.com/nasa/Kamodo for the public. We invite the community to use the reconstruction tool and adapt the provided workflows for their mission planning, and to contribute their own workflows to share with others.

software↗

NASA NTRSDate not supplied

SM25C-2002: Kamodo’s Satellite Constellation Mission Planning Tool

python↗

DOE OSTI2025

Confocal Raman Microscopy as an In Situ Probe of Volume Change in Hydration-Sensitive Polymer Membranes

An approach is described for measuring hydration-induced volume change within ion conductive polymer membranes and thin films by adapting the technique of confocal Raman microscopy. With careful consideration of factors that affect excitation and scattering within the confocal probe volume region, material swelling and deswelling were estimated from the intensities of polymer matrix spectral features. A high numerical aperture oil-immersion objective was used to achieve tight focusing within samples and the efficient collection of Raman scattered light. The approach is demonstrated for a fluorinated cation-exchange ionomer (Nafion) and the hydrocarbon anion-exchange ionomer Sustainion. Samples were monitored while under a nitrogen atmosphere that was cycled between dry and humid (∼50% relative humidity, RH) states. The volume changes estimated from the Raman spectra were in close agreement with those derived from conventional measurements. The reported work advances understanding needed to adapt confocal Raman microscopy for quantitative in situ and operando studies of ionomers within electrochemical devices, such as polymer electrolyte membrane fuel cells and electrolyzers, and lays a foundation for broader applications in the study of hydration-induced polymer swelling and the associated molecular level water and polymer framework structural changes.

Absorption↗

NASA NTRS2017

Novel End-to-End Molecular Biology Approach for Direct Nanopore 1D cDNA Sequencing of Reverse Transcribed mRNAs Purified from Cell Cultures by the NASA ISS WetLab2 SPM

Continued space bioscience research onboard the International Space Station (ISS) and future long-duration flight missions to the Moon or Mars will require the ability to conduct on-orbit molecular analysis of biological samples independently from Earth. In the last year two new molecular analytic technologies have been installed and the technologies demonstrated onboard the ISS: The Sample Prep Module (SPM) WetLab-2 (WL2) qRT-PCR toolbox and the Oxford Nanopore MinIon Biomolecule Sequencer. Here we describe protocol development and integration into existing ISS technology for end-to-end on-orbit biological sample processing and molecular analysis with real time results generated utilizing only field offline analytic software. For this experiment we isolated primary cells from bone marrow flushes of wild type B6129SF2 mice (Jackson Labs) long bones. The cell isolate was then processed using the SPM to produce total 147nanograms of RNA. The total RNA was purified to only messenger RNA (mRNA) and transferred to Smartcycler Thermocycle ISS kit consumable tube using Eppendorf gel loading pipette tips for further processing. Complementary first strand cDNA was synthesized using OLIGO dT priming followed by addition of SuperScript II Reverse Transcriptase and thermal cycling as per manufacturers instruction. All thermal cycling was conducted using the ISS WetLab-2 Cephid Smarcycler real time thermal cycler. Our protocol takes advantage of mRNAs native poly(A) tail, synthesized in vivo to protect the mRNA from degradation by endonucleases, to eliminate end-prep for adapter ligation. The adapted library is purified using MyOne C1 Streptavidin beads before elution in buffer. The pre-sequencing library is diluted in the loading buffer and injected into the MinIon sample port, drawn into the nanopore window by capillary action, and sequenced using the MinKnown software with local basecalling. The sequencing read produced 34.5 million events and local basecalling produced 117,301 successful reads. NCBI Blast of the data for the mouse genome resulted in 2,462 successful nucleotide collection matches (gene sequences) exceeding 70 homology. These results demonstrate the viability of this novel flight ready end-to-end sample analytic methodology and provide a real time homolog for flight experimentation utilizing supply kits and technologies that have already been demonstrated on ISS.

MinIon↗