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At least 721 records · Page 40
All sourcesNASA NTRSDOE OSTI
DOE OSTI2024

Enhancers in Plant Development, Adaptation and Evolution

Understanding plant responses to developmental and environmental cues is crucial for studying morphological divergence and local adaptation. Gene expression changes, governed by cis-regulatory modules (CRMs) including enhancers, are a major source of plant phenotypic variation. However, while genome-wide approaches have revealed thousands of putative enhancers in mammals, far fewer have been identified and functionally characterized in plants. This review provides an overview of how enhancers function to control gene regulation, methods to predict DNA sequences that may have enhancer activity, methods utilized to functionally validate enhancers and the current knowledge of enhancers in plants, including how they impact plant development, response to environment and evolutionary adaptation.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Characterizing photovoltaic backsheet adhesion degradation using the wedge and single cantilever beam tests, Part II: Accelerated tests

Photovoltaic (PV) backsheets provide critical moisture, mechanical, and electrical insulation to the backside of PV modules, but their continued functionality depends upon their ability to remain well adhered over years of harsh environmental exposure. A study of adhesive strength was conducted on several PV backsheet types exposed to indoor accelerated weathering. Two adhesion tests – the wedge test and single cantilever beam test – were used to measure adhesion energy in four backsheets: two with fluoropolymer-based outer (airside) layers – polyvinyl fluoride (PVF), polyvinylidene fluoride (PVDF) – and two with non-fluoropolymer-based outer layers–polyamide (PA) and polyethylene terephthalate (PET). The effects of changes in temperature, ultraviolet (UV) irradiance, relative humidity, and a periodic water spray were studied. The PET-, PVF- and PVDF-based backsheets all showed instances of debonding in an adhesive layer, which is commonly reported. Furthermore, for the PA-, PET-, and PVDF-based backsheets, adhesion energy dropped fairly rapidly with exposure, reaching very low levels by 4000 h. The PVF-based backsheet was relatively robust to weathering. Pull-off of an outer chalking layer in the PA- and PET-based backsheets suggested a sensitivity to UV. Adhesion in these two backsheets was also highly sensitive to changes in moisture level. Changes in UV irradiance and temperature did not show a statistically significant effect on adhesion loss for the exposure levels used. The present work is part of a two-part adhesion study on both field-weathered and indoor-exposed backsheets, and forms a basis for understanding adhesion degradation across a variety of backsheet types and degradation factors.

14 SOLAR ENERGY↗
DOE OSTI2023

Genomic characterization of rare earth binding by Shewanella oneidensis

Abstract Rare earth elements (REE) are essential ingredients of sustainable energy technologies, but separation of individual REE is one of the hardest problems in chemistry today. Biosorption, where molecules adsorb to the surface of biological materials, offers a sustainable alternative to environmentally harmful solvent extractions currently used for separation of rare earth elements (REE). The REE-biosorption capability of some microorganisms allows for REE separations that, under specialized conditions, are already competitive with solvent extractions, suggesting that genetic engineering could allow it to leapfrog existing technologies. To identify targets for genomic improvement we screened 3,373 mutants from the whole genome knockout collection of the known REE-biosorbing microorganism Shewanella oneidensis MR-1. We found 130 genes that increased biosorption of the middle REE europium, and 112 that reduced it. We verified biosorption changes from the screen for a mixed solution of three REE (La, Eu, Yb) using Inductively Coupled Plasma Mass Spectrometry (ICP-MS) in solution conditions with a range of ionic strengths and REE concentrations. We identified 18 gene ontologies and 13 gene operons that make up key systems that affect biosorption. We found, among other things, that disruptions of a key regulatory component of the arc system ( hptA ), which regulates cellular response to anoxic environments and polysaccharide biosynthesis related genes ( wbpQ , wbnJ , SO_3183 ) consistently increase biosorption across all our solution conditions. Our largest total biosorption change comes from our SO_4685 , a capsular polysaccharide (CPS) synthesis gene, disruption of which results in an up to 79% increase in biosorption; and nusA, a transcriptional termination/anti-termination protein, disruption of which results in an up to 35% decrease in biosorption. Knockouts of glnA , pyrD , and SO_3183 produce small but significant increases (≈ 1%) in relative biosorption affinity for ytterbium over lanthanum in multiple solution conditions tested, while many other genes we explored have more complex binding affinity changes. Modeling suggests that while these changes to lanthanide biosorption selectivity are small, they could already reduce the length of repeated enrichment process by up to 27%. This broad exploratory study begins to elucidate how genetics affect REE-biosorption by S. oneidensis , suggests new areas of investigation for better mechanistic understanding of the membrane chemistry involved in REE binding, and offer potential targets for improving biosorption and separation of REE by genetic engineering.

Medin, Sean↗
DOE OSTI2025

Characterization of Arsenic and Selenium in Coal Fly Ash to Improve Evaluations for Disposal and Reuse Potential (Final Technical Report)

Coal fly ash is a high volume waste material that is discarded in landfills and surface water impoundments across the U.S. and is also widely recycled for a variety of applications. The leaching of potential of contaminants of concern, such as arsenic (As) and selenium (Se), is often the driver of risk assessments for coal ash disposal and reuse. The extent of leachable As and Se depends on several factors related to environmental conditions and fly ash characteristics. Previous studies employed various methods to delineate the concentration, chemical form, and distribution of As and Se in fly ash materials. However, few studies have attempted to directly correlate these properties to mobilization parameters relevant to disposal and reuse. Instead, the coal residuals industries often rely upon standardized leaching protocols that can be laborious or involve hazardous chemicals. The goals of the project were to: 1) Develop and evaluate a characterization protocol that can be used to screen fly ash samples for leachability of As and Se; 2) Characterize As, Se, and associated constituents of fly ash particles at multiple length scales (nanometer to micrometer) to determine if elemental associations differ as a function of the resolution of characterization; and 3) Establish a predictive model for the chemical composition of coal ash produced annually at major U.S. coal fired power facilities on 50-year national coal supply records. For the first objective, we performed leaching experiments with 52 fly ash samples collected from 15 different U.S. power plants and representing coal feedstocks from the three major domestic coal regions. For this work, we assessed the mobilization potential of As and Se in fly ash based on standardized leaching protocols and performed multivariate and lasso regression analyses to explore correlations of leachable As and Se contents with characteristics such as major element contents, loss on ignition (LOI) and pH. The results of regression models indicated that major elements (Fe, Ca, Al) for a wide range of fly ashes can serve as predictor variables for the leaching potential of As, but not for Se. LOI and pH were not important predictive variables in the models. Both regression approaches resulted in relatively strong fits for leachable As (correlation coefficient R 2 = 0.78 for both models) compared to models for leachable Se (R 2 = 0.49). Overall, these results suggest that correlation models combined with on-site elemental analysis with portable analyzers may enable a screening method for leachable As in coal ash. For the second objective, we utilized nanoscale 2-D imaging (30-50 nm spot size) with the Hard X-ray Nanoprobe (HXN) in combination with microprobe X-ray capabilities (~5 µm resolution) to determine As and Se elemental associations in fly ash particles. Speciation of As and Se was also measured at the nano- to microscale with X-ray absorption spectroscopy. The enhanced resolution of HXN showed As and Se that were diffusely located around or comingled with Ca- and Fe-rich particles. The results also showed nanoparticles of Se attached to the surface of fly ash grains. Overall, a comparison of As and Se species across scales highlights the heterogeneity and complexity of chemical associations for these trace elements of concern in coal fly ash. For the final objective, we developed a predictive model for major element composition of coal ash in reserve at disposal sites of major U.S. coal fired power plants. This model was constructed from coal purchase records of 705 power stations from 1973-2022 and was trained on coal ash composition data showing that coal ash elemental composition is strongly associated with the source of feedstock coal. The model showed regional shifts in the major element contents of ash produced by power plants in the last 50 years, particularly for calcium and iron (expressed as %CaO and %Fe 2 O 3 ), as coal-fired power stations changed their source of coal over this time frame. Our approach enables an estimation of coal ash chemical composition that is stored in waste impoundments at individual power stations. Such information can help delineate the regional market potential for material applications that would utilize coal ash harvested from disposal sites across the U.S.

01 COAL, LIGNITE, AND PEAT↗
DOE OSTI2021

Influence of Tundra Polygon Type and Climate Variability on CO 2 and CH 4 Fluxes Near Utqiagvik, Alaska

Arctic tundra has the potential to generate significant climate feedbacks, but spatial complexity makes it difficult to quantify the impacts of climate on ecosystem-atmosphere fluxes, particularly in polygonal tundra comprising wetter and drier polygon types on the scale of tens of meters. We measured CO 2 , CH 4 , and energy fluxes using eddy covariance for 7 yr (April to November, 2013–2019) in polygonal tundra near Utqiagvik, Alaska. This period saw the earliest snowmelt, latest snow accumulation, and hottest summer on record. To estimate fluxes by polygon type, we combined a polygon classification with a flux-footprint model. Methane fluxes were highest in the summer months but were also large during freeze-up and increased with the warming trend in August–November temperatures. While CO 2 respiration had a consistent, exponential relationship with temperature, net ecosystem exchange was more variable among years. CO 2 and CH 4 exchange (June–September) ranged between -0.83 (Standard error [SE] = 0.03) and -1.32 (SE = 0.04) μmol m -2 s-1 and 13.92 (SE = 0.26)—23.42 (SE = 0.45) nmol m -2 s -1 , respectively, and varied interannually (p ≤ 0.05). The maximum-influence method effectively attributed fluxes to polygon types. Areas dominated by low-centered polygons had higher CO 2 fluxes except in 2016–2017. Methane fluxes were highest in low-centered polygons 2013–2015 and in flat-centered polygons in subsequent years, possibly due to increasing temperature and precipitation. Sensible and latent heat fluxes also varied significantly among polygon types. Accurate characterization of Arctic fluxes and their climate dependencies requires spatial disaggregation and long term observations.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Applicability for MELCOR Accident Code System (MACCS) to Model the Atmospheric Transport of Biological Contaminants

Characterization of airborne transmission behavior for biological contaminants is a critical aspect in developing public health guidelines in the event of an outbreak. Guidelines such as safe separation distances and physical protections (mask and face-shields) are heavily influenced by the particular biological airborne transmission risk, which depends on a multitude of factors and is not easily or readily determined, therefore potentially lagging behind the time sensitive need to inform effective public health guidelines. Herein is proposed a means to leverage the substantial investment over the last three decades of the Nuclear Regulatory Commission in the MACCS code suite developed at Sandia National Laboratories. This work includes augmenting the MACCS code to represent biological rather than radioactive contaminants in the atmosphere, therefore characterizing the airborne transmission risk for such contaminants and helping to inform critical and time sensitive public health guidelines.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

Alternative Conceptual Models of the Subsurface at the Hanford Site

This report describes the use of a multipoint geostatistics (MPS) framework with multiple data types for developing alternative conceptual-mathematical models of the subsurface at the Hanford Site. Developing multiple conceptual-mathematical models of the site is important for assessing potential uncertainties related to the features, events, and processes that control the subsurface flow of groundwater and the transport of contaminants of concern (COCs). Evaluating the effects of these uncertainties can result in better site characterization, monitoring, and remedial decisions.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2026

Emerging mobile lidar technology to study boundary layer winds influenced by operating turbines

The development of a microjoule-class pulsed Doppler lidar and deployment of this compact system on mobile platforms such as aircraft, ships, or trucks have opened a new opportunity to characterize the dynamics of complex mesoscale wind flows. The PickUp-based Mobile Atmospheric Sounder (PUMAS) truck-based lidar system was recently used during the American Wake Experiment (AWAKEN) to assess the general structure of boundary layer (BL) wind and turbulence around wind turbines in central Oklahoma. Wind speed profiles averaged over PUMAS transects influenced by the operating turbines (waked flow) show a 1–2 m s −1 reduction compared to mean undisturbed (free flow) wind speed profiles. Spatial variability in wind speed was observed in time–height cross-sections at different distances from turbines. The wind speeds were about 9–12 m s −1 at 6 km distance compared to 5–7 m s −1 at the transects near the turbines. The PUMAS dataset from AWAKEN demonstrated the capability of the mobile Doppler lidar system to document spatial variability in wind flows at different distances from wind turbines and obtain quantitative estimates of wind speed reduction in the waked flow. The high-frequency, simultaneous measurements of the horizontal and vertical winds provide a new approach for characterizing dynamic processes critical for wind farm wake analyses.

17 WIND ENERGY↗
DOE OSTI2024

Combined ambient vibration and surface displacement measurements for improved progressive failure monitoring at a toppling rock slab in Utah, USA

Seismic resonance and surface displacement measurements can be implemented in tandem to improve landslide characterization and progressive failure monitoring. Crack aperture data are frequently used in rock slope stability monitoring and often exhibit recognizable trends prior to failure, such as accelerated crack opening. Alternatively, ambient resonance data offer multiple parameters including modal frequencies, damping, and polarization that can be monitored alongside crack aperture and may respond differently to environmental forcings and complex failure evolution. We analyzed data from continuous ambient vibration monitoring and concomitant crack aperture measurements at the Courthouse Mesa instability, a large toppling sandstone slab in Utah, USA. Three years of data revealed crack aperture increases of 2–4 mm/year with no clearly detectable irreversible changes in modal parameters, including frequency. Annually, frequency and displacement varied by 29% and 19% of the mean, respectively, with average and maximum daily frequency fluctuations of 6.5% and 16%, respectively. These reversible cyclic changes were primarily temperature-driven, but annually, frequency was in-phase with temperature whereas crack aperture lagged temperature changes by ~37 days. Polarization and damping also varied seasonally but were less strongly correlated with temperature. Conceptual 3D finite element modeling demonstrated consistent frequency decreases associated with crack propagation but variable changes in crack aperture measured at a single point; i.e., crack propagation did not always result in increased crack opening but always generated a resonance frequency decrease. Taken together, our data suggest a possible thermal wedging-ratcheting mechanism at the Courthouse Mesa instability, where annual thermoelastic crack closure is impeded by debris infill but the absence of downward crack propagation during the monitoring period is evidenced by no permanent resonance frequency changes. Our study demonstrates that combined seismic resonance and crack aperture data provide an improved description of rock slope instability behavior, supporting refined characterization and monitoring of changes accompanying progressive failure.

58 GEOSCIENCES↗
DOE OSTI2024

Fabricated devices for performing bacterial-fungal interaction experiments across scales

Diverse and complex microbiomes are found in virtually every environment on Earth. Bacteria and fungi often co-dominate environmental microbiomes, and there is growing recognition that bacterial-fungal interactions (BFI) have significant impacts on the functioning of their associated microbiomes, environments, and hosts. Investigating BFI in vitro remains a challenge, particularly when attempting to examine interactions at multiple scales of system complexity. Fabricated devices can provide control over both biotic composition and abiotic factors within an experiment to enable the characterization of diverse BFI phenotypes such as modulation of growth rate, production of biomolecules, and alterations to physical movements. Engineered devices ranging from microfluidic chips to simulated rhizosphere systems have been and will continue to be invaluable to BFI research, and it is anticipated that such devices will continue to be developed for diverse applications in the field. This will allow researchers to address specific questions regarding the nature of BFI and how they impact larger microbiome and environmental processes such as biogeochemical cycles, plant productivity, and overall ecosystem resilience. Devices that are currently used for experimental investigations of bacteria, fungi, and BFI are discussed herein along with some of the associated challenges and several recommendations for future device design and applications.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Activity‐Based Protein Profiling – Enabling Phenotyping of Host‐Associated and Environmental Microbiomes

Abstract Host‐associated and environmental microbiomes play central roles in human health, biogeochemical cycling, response to ecosystem change, and agriculture. Scientific approaches that can reveal the functional activities that contribute to observed phenotypes are needed in microbiome research. Broad characterization of the functional activity of microbes within microbiomes is currently hampered by approaches that rely on inference of function from metagenomes or indirect measurements. Activity‐based protein profiling is uniquely positioned to overcome these challenges and reveal the protein‐level mechanisms associated with microbiome phenotypes. In this review we describe the progress made to date using ABPP in gut microbiome, plant‐microbe interaction, and soil microbiome research, and suggest how ABPP data can be coupled with advanced computational methods to enable phenotype prediction and bioengineering of microbiomes for applied purposes.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Soil pH influences the structure of virus communities at local and global scales

The influence of biotic and abiotic factors on viral communities across environmental gradients in soil is relatively unknown. While soil pH strongly influences microbial community structure, it is unclear whether there is a similar influence on soil viruses. In this study, prokaryotic and viral communities were characterized in soils from a long-term pH-manipulated soil gradient (pH 4.5 and 7.5), and viral populations also compared to those of other soils ranging in pH (4.0–7.5). Viral communities were significantly influenced by pH at the local scale with 99% of viral operational taxonomic units restricted to pH 4.5 or 7.5 soil only. Analysis of viromes from six other European and North American soil systems demonstrated that a selection of viral clusters from acidic and neutral pH soils were more associated with those from the local gradient pH 4.5 or 7.5 soils, respectively. While direct pH effects on virion integrity and indirect selection via host composition were not distinguished, the results reveal that soil pH is a factor in structuring viral communities at local and global scales.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Chemical and Biological Catalysis for Plastics Recycling and Upcycling

Plastics pollution is causing an environmental crisis, prompting the development of new approaches for recycling, and upcycling. Here, we review challenges and opportunities in chemical and biological catalysis for plastics deconstruction, recycling, and upcycling. We stress the need for rigorous characterization and use of widely available substrates, such that catalyst performance can be compared across studies. Where appropriate, we draw parallels between catalysis on biomass and plastics, as both substrates are low-value, solid, recalcitrant polymers. Innovations in catalyst design and reaction engineering are needed to overcome kinetic and thermodynamic limitations of plastics deconstruction. Either chemical and biological catalysts will need to act interfacially, where catalysts function at a solid surface, or polymers will need to be solubilized or processed to smaller intermediates to facilitate improved catalyst–substrate interaction. Overall, developing catalyst-driven technologies for plastics deconstruction and upcycling is critical to incentivize improved plastics reclamation and reduce the severe global burden of plastic waste.

28 EE - Advanced Manufacturing Office (EE-5A)↗
DOE OSTI2025

Discovery of Signaling Small Molecules (e.g. quorum sensing molecules) from the Microbiome

Microbial communities are shaped through the interactions between their microbial members and the environment (microbe-microbe and host-microbe interactions). Signal transduction pathways in the microbiome are often modulated through the small molecule products of microbial biosynthetic gene clusters (BGCs). Advances in 16S rRNA profiling and shotgun metagenomics have revolutionized our understanding about the microbial composition of various communities and their BGCs. Environmental metagenomes contain thousands of BGCs with uncharacterized small molecule products that potentially play roles in signal transduction. The overarching aim of this proposal was to develop computational techniques for discovering these small molecules and characterizing their bioactivity.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Artificial Intelligence and Computer Vision for Cost-Effective Benthic Habitat Characterizations

Machine learning applied to computer vision and pattern recognition is a type of artificial intelligence that has advanced rapidly in the last 10 to 15 years, spurred forward by breakthroughs in deep convolutional neural networks. These state-of-the-art methods are poised to become widely used in environmental monitoring applications as a result of the increasing abundance of data available from different imaging platforms (e.g., fixed-point cameras, drone surveys, high-resolution satellite data) that can be analyzed to observe, model, and understand environmental conditions. Computer vision and pattern recognition (CVPR) tools advance our ability to use imagery and camera-based tools in cost-effective ways for environmental monitoring. Although these techniques offer great potential, some challenges remain, such as the need for large sets of labeled images for model training and validation and optimized hardware and software to ensure that the models can be trained effectively and in a reasonable amount of time. Here, we have overcome many of these rate-limiting challenges by using a diverse image library built across multiple projects coupled with staff expertise and onsite computing resources. We are working toward a fully automated SPI processing system and also are moving to develop CVPR analytical tools for other imaging platforms and data sets.

02 PETROLEUM↗
DOE OSTI2021

Competitive TcO4-, IO3-, and CrO42- Incorporation into Ettringite

Ettringite is a naturally occurring mineral found in cementitious matrices that is known for its ability to incorporate environmentally mobile oxyanion contaminants. To better assess this immobilization mechanism for contaminants within cementitious waste forms intended for nuclear waste storage, this work explores how mixed oxyanion contaminants compete for ettringite incorporation and influence the evolving mineralogy. Ettringite was precipitated in the presence of TcO4-, IO3-, and/or CrO42-, known contaminants of concern to nuclear waste treatment, over pre-determined precipitation periods. Solution analyses quantified contaminant removal and the collected solid was characterized using bulk and microprobe XRD coupled with PDF and microprobe XRF analyses. Results suggest that =96% IO3- is removed from solution, regardless of ettringite precipitation time or the presence of TcO4- or CrO42-. However, TcO4- removal remained <20%, was not significantly improved with longer ettringite precipitation times, and significantly decreased in the presence of IO3-. When IO3- is comingled with CrO42, gypsum is formed as a secondary mineral phase, which results in oxyanion partitioning among mineral phases, e.g., IO3- incorporation into ettringite and CrO42- incorporation into gypsum via SO42- substitution. Results from this work exemplify the importance of competitive immobilization when assessing waste form performance and environmental risk of contaminant release.

Gillispie, Elizabeth C.↗