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At least 145 records · Page 8

Overview of Biomineralization and Nanobacteria

Biomineralization is a frequently used term in nanotechnology, astrobiology, geology, and medicine. In the process of biomineralization, a living organism provides a chemical environment that controls the nucleation and growth of unique mineral phases. Often these materials exhibit hierarchical structural order, leading to superior physical properties, not found either in their inorganic counterparts or in synthetic materials. Biomineralization is widespread in the biosphere and hundreds of different minerals are produced or assisted by a variety of organisms from bacteria to humans. Teeth, bones, kidney stones, and skeletons of algae, mussels, and magnetotactic bacteria are all examples of biomineralization. We do not fully understand the control mechanism of biomineralization either in primitive or in developed organisms. The presence of organic molecules, among other characteristics, can influence the coherence length for X-ray scattering in biogenic crystals. Control over biomineral properties can be accomplished at a myriad of levels, including the regulation of particle size, shape, crystal orientation, polymorphic structure, defect texture, and particle assembly. In the latter case, cellular processes enable control in both the spatial and temporal domain in such a way that hierarchical composite structures can be built which increase the toughness and durability of the material, which is invaluable for load-bearing materials such as bones, teeth, mollusk shells, etc. Durability of biominerals produces remarkably preserved bacterial and cyanobacterial microfossils from billions of years-old samples. The differentiation between microfossils and nonbiogenic artifacts has been a lively discussion subject in astrobiology especially in the last decade. Clearly, more detailed information on the mechanism of biomineralization, and the effect of organic matter on crystal formation/fossilization would help focus such discussions.

Ciftcioglu, N.↗

Bayesian Spatially Varying Multi-Regularization Image Deblurring

Many scientific experiments such as those found in astronomy, geology, microbiology, and X-ray radiography require the use of high-energy instruments to capture images. Since blur and noise are inevitably present in any imaging system, the images must be \deblurred" to extract the full information content. Mathematically, image deblurring is an ill-posed inverse problem that requires regularization. The regularization, in turn, has a large effect on the deblurred image: different regularization strengths, and types, lead to drastically different reconstructions. Moreover, many images contain a mixture of smooth and sharp features which suggests the use of multi-regularization, i.e., varying the type of regularization (e.g. Tikhonov or total variation) across the image. We address these issues by formulating the image deblurring problem within a hierarchical Bayesian framework in which we spatially adapt the strength of the regularization and also vary the regularization type across the image. In this way, the image itself, along with corresponding regularization strength at each pixel, are described jointly by a posterior distribution which we can sample by Markov chain Monte Carlo (MCMC) methods. We illustrate our techniques on simplified test problems and apply them to high-energy X-ray images taken at the Nevada National Security Site. Numerical tests show that our new method is robustly applicable and increases the quality of the image reconstruction when compared to other (Bayesian) methods.

97 MATHEMATICS AND COMPUTING↗

Spectral analysis for automated exploration and sample acquisition

Future space exploration missions will rely heavily on the use of complex instrument data for determining the geologic, chemical, and elemental character of planetary surfaces. One important instrument is the imaging spectrometer, which collects complete images in multiple discrete wavelengths in the visible and infrared regions of the spectrum. Extensive computational effort is required to extract information from such high-dimensional data. A hierarchical classification scheme allows multispectral data to be analyzed for purposes of mineral classification while limiting the overall computational requirements. The hierarchical classifier exploits the tunability of a new type of imaging spectrometer which is based on an acousto-optic tunable filter. This spectrometer collects a complete image in each wavelength passband without spatial scanning. It may be programmed to scan through a range of wavelengths or to collect only specific bands for data analysis. Spectral classification activities employ artificial neural networks, trained to recognize a number of mineral classes. Analysis of the trained networks has proven useful in determining which subsets of spectral bands should be employed at each step of the hierarchical classifier. The network classifiers are capable of recognizing all mineral types which were included in the training set. In addition, the major components of many mineral mixtures can also be recognized. This capability may prove useful for a system designed to evaluate data in a strange environment where details of the mineral composition are not known in advance.

Eberlein, Susan↗

Native Defects Hybridization and Electronic Transport in Cu 2 Se–CuGaSe 2 Hierarchical Composites

Engineering the energy distribution of electronic defects in semiconductors can afford the coexistence of degenerate and nondegenerate transport behavior. By leveraging native defects in Cu 2 Se and CuGaSe 2 phases, the tunability of the concentration and energy distribution of active electronic defects in hierarchical (1-x)Cu 2 Se-(x)CuGaSe 2 composites is demonstrated. This study found that the electrical conductivity of various composites decreases with rising temperature indicating degenerate semiconducting behavior, whereas the carrier density increases with temperature, which is consistent with non-degenerate semiconductivity. Remarkably, this study found that while the carrier density and electrical conductivity drop with the increasing CuGaSe 2 content for samples with x ≤ 0.45 is consistent with an increase in the activation energy of “active” electronic defects, the sudden increase by 140% in the electrical conductivity and by 109% in the carrier density for near equimolar composition suggests the formation of a large density of electronic defects with lower activation energy. This unusual behavior is understood within the context of the hybridization of coexisting native electronic defects to form degenerate hybrid acceptor states with lower activation energy. The reported unique electronic transport can be leveraged for the development of more versatile electronic and optoelectronic devices with superior performance.

36 MATERIALS SCIENCE↗

Randomized Federated Learning Methods for Nonsmooth, Nonconvex, and Hierarchical Optimization (Final Technical Report)

This final technical report summarizes the outcomes of a DOE-funded project on federated scientific machine learning (FL) under nonsmooth, nonconvex, and hierarchical optimization settings. The project develops new mathematical models, algorithms, and theoretical guarantees for decentralized stochastic, bilevel, and minimax optimization problems arising in DOE mission-relevant applications. A unified framework of randomized and zeroth-order federated optimization methods is introduced, providing provable convergence, communication efficiency, and sample-complexity guarantees. The report documents algorithmic design, theoretical analysis, and empirical validation of the proposed federated learning methods. The project also contributes to workforce development through graduate training and dissemination of results via publications and seminars.

97 MATHEMATICS AND COMPUTING↗

Hierarchical Screening for Li-Based Solid Electrolytes Using Fast, Interpretable Machine-Learned Potentials

Li-based solid-state electrolyte materials enable safer, all-solid-state batteries but the computational search for candidates with favorable stability and Li-ion conductivity is challenging due to the size of the search space and the cost of evaluating transport properties with ab initio methods. The prohibitive cost of high-throughput screening with DFT has lead to the development of surrogate models using geometric analysis, empirical potentials, and descriptors for ionic transport. Here, I will discuss a hierarchical screening approach for identifying promising materials using a combination of density functional theory, bond-valence methods, and machine learning potentials generated with the Ultra-Fast Force Fields (UF3) framework. We show how the inexpensive bond-valence method can be used to guide the generation of training samples for machine learning, in addition to filtering candidates.

Materials discovery↗

Evaluation of Skylab (EREP) data for forest and rangeland surveys

The author has identified the following significant results. Four widely separated sites (near Augusta, Georgia; Lead, South Dakota; Manitou, Colorado; and Redding, California) were selected as typical sites for forest inventory, forest stress, rangeland inventory, and atmospheric and solar measurements, respectively. Results indicated that Skylab S190B color photography is good for classification of Level 1 forest and nonforest land (90 to 95 percent correct) and could be used as a data base for sampling by small and medium scale photography using regression techniques. The accuracy of Level 2 forest and nonforest classes, however, varied from fair to poor. Results of plant community classification tests indicate that both visual and microdensitometric techniques can separate deciduous, conifirous, and grassland classes to the region level in the Ecoclass hierarchical classification system. There was no consistency in classifying tree categories at the series level by visual photointerpretation. The relationship between ground measurements and large scale photo measurements of foliar cover had a correlation coefficient of greater than 0.75. Some of the relationships, however, were site dependent.

Aldrich, R. C.↗

Implementation of a C-1 triangular element based on the P-version of the finite element method

The implementation of a computer code CONE (for C(1) continuity) based on the p-version of the finite element method is described. A hierarchic family of triangular finite elements of degree p 5 is used. This family enforces C(1)-continuity across interelement boundaries, and the code is applicable to fourth order partial differential equations in two independent variables, in particular to the biharmonic equation. Applications to several benchmark problems in plate bending are presented. Sample results are examined and compared with theoretical predictions. In particular the analysis of the bending of a rhombic plate shows a significant improvement over othr published results.

Wang, D. W.↗

Network of networks: Time series clustering of AmeriFlux sites

Environmental observation networks, such as AmeriFlux, are foundational for monitoring ecosystem response to climate change, management practices, and natural disturbances; however, their effectiveness depends on their representativeness for the regions or continents. We proposed an empirical, time series approach to quantify the similarity of ecosystem fluxes across AmeriFlux sites. We extracted the diel and seasonal characteristics (i.e., amplitudes, phases) from carbon dioxide, water vapor, energy, and momentum fluxes, which reflect the effects of climate, plant phenology, and ecophysiology on the observations, and explored the potential aggregations of AmeriFlux sites through hierarchical clustering. While net radiation and temperature showed latitudinal clustering as expected, flux variables revealed a more uneven clustering with many small (number of sites < 5), unique groups and a few large (> 100) to intermediate (15–70) groups, highlighting the significant ecological regulations of ecosystem fluxes. Many identified unique groups were from under-sampled ecoregions and biome types of the International Geosphere-Biosphere Programme (IGBP), with distinct flux dynamics compared to the rest of the network. At the finer spatial scale, local topography, disturbance, management, edaphic, and hydrological regimes further enlarge the difference in flux dynamics within the groups. Nonetheless, our clustering approach is a data-driven method to interpret the AmeriFlux network, informing future cross-site syntheses, upscaling, and model-data benchmarking research. Finally, we highlighted the unique and underrepresented sites in the AmeriFlux network, which were found mainly in Hawaii and Latin America, mountains, and at under-sampled IGBP types (e.g., urban, open water), motivating the incorporation of new/unregistered sites from these groups.

54 ENVIRONMENTAL SCIENCES↗

Open Science for Plants in Space: Improvements in NASA's Open Science Data Repository

Upcoming deep space missions will rely on plants for crew and ecosystem health. Open access space biology data enables scientists to examine the biological responses of plants to ionizing radiation, altered gravity, elevated CO2, and many other abiotic stressors. NASA has declared 2023 as the ‘Year of Open Science’ and created a 5-year Transform to Open Science (TOPS) initiative designed to rapidly transform the agency toward an inclusive culture of open science. NASA’s Open Science Data Repository (OSDR) combines two databases, GeneLab and Ames Life Sciences Data Archive (ALSDA) to maximize access to standardized ‘omics (e.g., transcriptomics, proteomics) and phenotypic data (e.g., microscopy, biomass), respectively. Current OSDR standards include the ISA (Investigation-Study-Assay) experiment model, assay metadata configurations, and standardized terminology and ontologies. In 2024 OSDR will include a new suite of features for improved FAIR compliance including downloadable plant metadata templates, data submission tools and overall improved AI-readiness of plant datasets. AI/ML methods can be helpful tools to overcome the inherent challenges of space biology research (small sample size, sparse and heterogeneous data etc.). However these methods are built on an assumption of normalized and well-curated data. OSDR’s new curation tools will improve users ability to leverage ML and AI methods to model space biology data and better understand the complex effects of spaceflight on living systems across hierarchical biological levels. We look forward to sharing our advances with the spaceflight community.

FAIR↗

Development of Nanocrystalline Graphite from Lignin Sources

Carbon composites are attractive to a variety of high-impact applications, such as carbon fibers, batteries, and vehicle parts, due to their multifunctional properties. The properties of carbon are highly dependent on the allotrope the carbon takes and the functionality, impurities, and defects contained within the structure. The increase in demand for sustainable carbon sources in energy storage devices motivates interest in understanding synthesis parameters of lignin value-added products. Also, as the dependence on oil for fuel decreases, alternative sources for carbon in many applications will be needed. In this work, the thermochemical conversion of lignin powders from different feedstocks was evaluated via small and wide-angle X-ray scattering techniques to resolve the amorphous, disordered, and crystalline domains present in the lignin carbons. Scattering analyses indicated an evolution of hierarchical structures along with an increase in ordered domains as a function of carbonization temperature. Qualitative and quantitative methods were used to describe isotropic scattering intensity profiles at multiple length scales. The use of power law models in the mesoscopic region served as the basis to describe morphological changes related to structural features, for example, graphene stacking, degree of roughness, and surface fractals. Kraft softwood and switchgrass produced carbon powder with the most crystalline domains and the least surface roughness. Softwoods reached the highest degree of crystallinity followed by switchgrass samples and had less variability in particle sizes. These results suggest lignin carbons extracted from softwoods and switchgrass are viable substitutes for graphite. Interpretation of X-ray scattering data from lignin carbon powders elucidates feedstock- and processing-dependent morphological features across multiple length scales providing a straightforward framework to evaluate the feasibility of leveraging lignin carbons for producing tunable application-specific materials.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Does the leaf economic spectrum hold within plant functional types? A Bayesian multivariate trait meta-analysis

The leaf economic spectrum is a widely-studied axis of plant trait variability that defines a trade-off between leaf longevity and productivity. While this has been investigated at the global scale, where it is robust, and at local scales, where deviations from it are common, it has received less attention at the intermediate scale of PFTs. We investigated whether global leaf economic relationships are also present within the scale of plant functional types (PFTs) commonly used by Earth System models, and the extent to which this global-PFT hierarchy can be used to constrain trait estimates. We developed a hierarchical multivariate Bayesian model that assumes separate means and covariance structures within and across PFTs and fit this model to seven leaf traits from the TRY database related to leaf longevity, morphology, biochemistry, and photosynthetic metabolism. Although patterns of trait covariation were generally consistent with the leaf economic spectrum, we found three approximate tiers to this consistency. Relationships among morphological and biochemical traits (SLA, N, P) were the most robust within and across PFTs, suggesting that covariation in these traits is driven by universal leaf construction trade-offs and stoichiometry. Relationships among metabolic traits (R_d, V_{c,max}, J_max) were slightly less consistent, reflecting in part their much sparser sampling (especially for high-latitude PFTs), but also pointing to more flexible plasticity in plant metabolistm. Finally, relationships involving leaf lifespan were the least consistent, indicating that leaf economic relationships related to leaf lifespan are dominated by across-PFT differences and that within-PFT variation in leaf lifespan is more complex and idiosyncratic. Across all traits, these covariance were an important source of information, as evidenced by the improved imputation accuracy and reduced predictive uncertainty in multivariate models compared to univariate models. Ultimately, our study reaffirms the value of studying not just individual traits but the multivariate trait space and the utility of hierarchical modeling for studying the scale dependence of trait relationships.

biodiversity, ecological modeling, ecology, leaf b↗

Evidence for evolution of the luminosity function of clusters of galaxies

From an all sky, x-ray flux limited sample of clusters of galaxies evidence for a significant deficit in the number of high luminosity clusters is found in the redshift range z approximately 0.1 to 0.2 compared with numbers of nearby clusters. This indicates that the x-ray luminous clusters are undergoing strong evolution. The strength of the effect is consistent with hierarchical merging models. The implications of such strong evolution for clusters are discussed.

Edge, Alastair C.↗

Evidence for evolution of the luminosity function of clusters of galaxies

From an all sky, X-ray flux limited sample of clusters of galaxies evidence for a significant deficit in the number of high luminosity clusters is found in the redshift range z approximately 0.1 to 0.2 compared with numbers of nearby clusters. This indicates that the X-ray luminous clusters are undergoing strong evolution. The strength of the effect is consistent with hierarchical merging models. The implications of such strong evolution for clusters are discussed.

Edge, A. C.↗

"Tools For Analysis and Visualization of Large Time- Varying CFD Data Sets"

During the four years of this grant (including the one year extension), we have explored many aspects of the visualization of large CFD (Computational Fluid Dynamics) datasets. These have included new direct volume rendering approaches, hierarchical methods, volume decimation, error metrics, parallelization, hardware texture mapping, and methods for analyzing and comparing images. First, we implemented an extremely general direct volume rendering approach that can be used to render rectilinear, curvilinear, or tetrahedral grids, including overlapping multiple zone grids, and time-varying grids. Next, we developed techniques for associating the sample data with a k-d tree, a simple hierarchial data model to approximate samples in the regions covered by each node of the tree, and an error metric for the accuracy of the model. We also explored a new method for determining the accuracy of approximate models based on the light field method described at ACM SIGGRAPH (Association for Computing Machinery Special Interest Group on Computer Graphics) '96. In our initial implementation, we automatically image the volume from 32 approximately evenly distributed positions on the surface of an enclosing tessellated sphere. We then calculate differences between these images under different conditions of volume approximation or decimation.

Wilhelms, Jane↗

Insights from application of a hierarchical spatio-temporal model to an intensive urban black carbon monitoring dataset

Existing regulatory pollutant monitoring networks rely on a small number of centrally located measurement sites that are purposefully sited away from major emission sources. While informative of general air quality trends regionally, these networks often do not fully capture the local variability of air pollution exposure within a community. Recent technological advancements have reduced the cost of sensors, allowing air quality monitoring campaigns with high spatial resolution. The 100×100 black carbon (BC) monitoring network deployed 100 low-cost BC sensors across the 15 km 2 West Oakland, CA community for 100 days in the summer of 2017, producing a nearly continuous site-specific time series of BC concentrations which we aggregated to one-hour averages. Leveraging this dataset, we employed a hierarchical spatio-temporal model to accurately predict local spatio-temporal concentration patterns throughout West Oakland, at locations without monitors (average cross-validated hourly temporal R 2 =0.60). Using our model, we identified spatially varying temporal pollution patterns associated with small-scale geographic features and proximity to local sources. In a sub-sampling analysis, here we demonstrated that fine scale predictions of nearly comparable accuracy can be obtained with our modeling approach by using ~30% of the 100×100 BC network supplemented by a shorter-term high-density campaign.

54 ENVIRONMENTAL SCIENCES↗

Application of an integrated flight/propulsion control design methodology to a STOVL aircraft

The application of an emerging Integrated Flight/Propulsion Control design methodology to a STOVL aircraft in transition flight is reported. The methodology steps consist of: (1) design of a centralized feedback controller to provide command tracking and stability and performance robustness considering the fully integrated airframe/propulsion model as one high-order system; (2) partition of the centralized controller into a decentralized, hierarchical form compatible with implementation requirements; and (3) design of command shaping prefilters from pilot control effectors to commanded variables to provide the overall desired response to pilot inputs. Intermediate design results using this methodology are presented, the complete point control design with the propulsion system operating schedule and limit protection logic included is evaluated for sample pilot control inputs, and the response is compared with that of an 'ideal response model' derived from Level I handling qualities requirements.

Garg, Sanjay↗

Cluster evolution as a probe of primordial density fluctuations

Although COBE's detection of large angle microwave background anisotropies fixes the amplitude of density fluctuations on length scales k exp -1 approximately = (300-6000) h(exp -1)Mpc, what is crucial for the level of large scale clustering is the amplitude of density fluctuations on scales (5-50) h(exp -1)Mpc. The level of dynamical clustering is usually parameterized by the size of the mass fluctuations in 8 h exp -1 Mpc spheres, sigma sub 8. For the cold dark matter model, COBE gives sigma sub 8 approximately = 1, while models with extra large scale power give sigma sub 8 approximately = 1/2. The most massive clusters of galaxies (greater than or approximately = 10 exp 15 solar mass) form from rare 'peak patches' found in the initial mass density distribution. Their abundance as a function of redshift is a sensitive probe of the wave number band k(exp -1) approx. (3-8) h(exp -1)Mpc, hence of sigma sub 8, and so cluster evolution can discriminate among models allowed by the COBE results. We use our Hierarchical Peaks Method, which accurately reproduces the results of P3M N-body simulations, to calculate the evolution of cluster x-ray flux counts, luminosity, and temperature functions as a function of sigma sub 8 for CDM models and those with more large scale power. We find that the EMSS and Edge et al. cluster samples support sigma sub 8 in the range from approx. 0.6-0.9, and that models with more large scale power (and hence flatter fluctuation spectra in the cluster regime) fit the x-ray bright end better.

Bond, J. Richard↗