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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.
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Characterizing the Radioresponse of Pluripotent and Multipotent Human Stem Cells
The potential capability of stem cells to restore functionality to diseased or aged tissues has prompted a surge of research, but much work remains to elucidate the response of these cells to genotoxic agents. To more fully understand the impact of irradiation on different stem cell types, the present study has analyzed the radioresponse of human pluripotent and multipotent stem cells. Human embryonic stem (ES) cells, human induced pluripotent (iPS) cells, and iPS-derived human neural stem cells (iPS-hNSCs) cells were irradiated and analyzed for cell survival parameters, differentiation, DNA damage and repair and oxidative stress at various times after exposure. While irradiation led to dose-dependent reductions in survival, the fraction of surviving cells exhibited dose-dependent increases in metabolic activity. Irradiation did not preclude germ layer commitment of ES cells, but did promote neuronal differentiation. ES cells subjected to irradiation exhibited early apoptosis and inhibition of cell cycle progression, but otherwise showed normal repair of DNA double-strand breaks. Cells surviving irradiation also showed acute and persistent increases in reactive oxygen and nitrogen species that were significant at nearly all post-irradiation times analyzed. We suggest that stem cells alter their redox homeostasis to adapt to adverse conditions and that radiation-induced oxidative stress plays a role in regulating the function and fate of stem cells within tissues compromised by radiation injury.
Cigarette Smoke Toxins Deposited on Surfaces: Implications for Human Health
Cigarette smoking remains a significant health threat for smokers and nonsmokers alike. Secondhand smoke (SHS) is intrinsically more toxic than directly inhaled smoke. Recently, a new threat has been discovered – Thirdhand smoke (THS) – the accumulation of SHS on surfaces that ages with time, becoming progressively more toxic. THS is a potential health threat to children, spouses of smokers and workers in environments where smoking is or has been allowed. The goal of this study is to investigate the effects of THS on liver, lung, skin healing, and behavior, using an animal model exposed to THS under conditions that mimic exposure of humans. THS-exposed mice show alterations in multiple organ systems and excrete levels of NNAL (a tobacco-specific carcinogen biomarker) similar to those found in children exposed to SHS (and consequently to THS). In liver, THS leads to increased lipid levels and non-alcoholic fatty liver disease, a precursor to cirrhosis and cancer and a potential contributor to cardiovascular disease. In lung, THS stimulates excess collagen production and high levels of inflammatory cytokines, suggesting propensity for fibrosis with implications for inflammation-induced diseases such as chronic obstructive pulmonary disease and asthma. In wounded skin, healing in THS-exposed mice has many characteristics of the poor healing of surgical incisions observed in human smokers. Lastly, behavioral tests show that THS-exposed mice become hyperactive. The latter data, combined with emerging associated behavioral problems in children exposed to SHS/THS, suggest that, with prolonged exposure, they may be at significant risk for developing more severe neurological disorders. These results provide a basis for studies on the toxic effects of THS in humans and inform potential regulatory policies to prevent involuntary exposure to THS.
Computational Ranking of Yerba Mate Small Molecules Based on Their Predicted Contribution to Antibacterial Activity against Methicillin-Resistant Staphylococcus aureus
We report that the aqueous extract of yerba mate, a South American tea beverage made from Ilex paraguariensis leaves, has demonstrated bactericidal and inhibitory activity against bacterial pathogens, including methicillin-resistant Staphylococcus aureus (MRSA). The gas chromatography-mass spectrometry (GC-MS) analysis of two unique fractions of yerba mate aqueous extract revealed 8 identifiable small molecules in those fractions with antimicrobial activity. For a more comprehensive analysis, a data analysis pipeline was assembled to prioritize compounds for antimicrobial testing against both MRSA and methicillin-sensitive S. aureus using forty-two unique fractions of the tea extract that were generated in duplicate, assayed for activity, and analyzed with GC-MS. As validation of our automated analysis, we checked our predicted active compounds for activity in literature references and used authentic standards to test for antimicrobial activity. 3,4-dihydroxybenzaldehyde showed the most antibacterial activity against MRSA at low concentrations in our bioassays. In addition, quinic acid and quercetin were identified using random forests analysis and 5-hydroxy pipecolic acid was identified using linear discriminant analysis. We also generated a ranked list of unidentified compounds that may contribute to the antimicrobial activity of yerba mate against MRSA. Here we utilized GC-MS data to implement an automated analysis that resulted in a ranked list of compounds that likely contribute to the antimicrobial activity of aqueous yerba mate extract against MRSA.
Consequences of Low Dose Ionizing Radiation Exposure on the Hippocampal Microenvironment
The response of the brain to irradiation is complex, involving a multitude of stress inducible pathways that regulate neurotransmission within a dynamic microenvironment. While significant past work has detailed the consequences of CNS radiotherapy following relatively high doses ( ≥ 45 Gy), few studies have been conducted at much lower doses ( ≤ 2 Gy), where the response of the CNS (like many other tissues) may differ substantially from that expected from linear extrapolations of high dose data. Low dose exposure could elicit radioadaptive modulation of critical CNS processes such as neurogenesis, that provide cellular input into hippocampal circuits known to impact learning and memory. Here we show that mice deficient for chemokine signaling through genetic disruption of the CCR2 receptor exhibit a neuroprotective phenotype. Compared to wild type (WT) animals, CCR2 deficiency spared reductions in hippocampal neural progenitor cell survival and stabilized neurogenesis following exposure to low dose irradiation. While radiation-induced changes in microglia levels were not found in WT or CCR2 deficient animals, the number of Iba1+ cells did differ between each genotype at the higher dosing paradigms, suggesting that blockade of this signaling axis could moderate the neuroinflammatory response. Interestingly, changes in proinflammatory gene expression were limited in WT animals, while irradiation caused significant elevations in these markers that were attenuated significantly after radioadaptive dosing paradigms in CCR2 deficient mice. These data point to the importance of chemokine signaling under low dose paradigms, findings of potential significance to those exposed to ionizing radiation under a variety of occupational and/or medical scenarios.
Neotropical peatland methane emissions along a vegetation and biogeochemical gradient
Not Available
Exploiting bacterial effector proteins to uncover evolutionarily conserved antiviral host machinery
Arboviruses are a diverse group of insect-transmitted pathogens that pose global public health challenges. Identifying evolutionarily conserved host factors that combat arbovirus replication in disparate eukaryotic hosts is important as they may tip the balance between productive and abortive viral replication, and thus determine virus host range. Here, we exploit naturally abortive arbovirus infections that we identified in lepidopteran cells and use bacterial effector proteins to uncover host factors restricting arbovirus replication. Bacterial effectors are proteins secreted by pathogenic bacteria into eukaryotic hosts cells that can inhibit antimicrobial defenses. Since bacteria and viruses can encounter common host defenses, we hypothesized that some bacterial effectors may inhibit host factors that restrict arbovirus replication in lepidopteran cells. Thus, we used bacterial effectors as molecular tools to identify host factors that restrict four distinct arboviruses in lepidopteran cells. By screening 210 effectors encoded by seven different bacterial pathogens, we identify several effectors that individually rescue the replication of all four arboviruses. We show that these effectors encode diverse enzymatic activities that are required to break arbovirus restriction. We further characterize Shigella flexneri-encoded IpaH4 as an E3 ubiquitin ligase that directly ubiquitinates two evolutionarily conserved proteins, SHOC2 and PSMC1, promoting their degradation in insect and human cells. We show that depletion of either SHOC2 or PSMC1 in insect or human cells promotes arbovirus replication, indicating that these are ancient virus restriction factors conserved across invertebrate and vertebrate hosts. Collectively, our study reveals a novel pathogen-guided approach to identify conserved antimicrobial machinery, new effector functions, and conserved roles for SHOC2 and PSMC1 in virus restriction.
Geothermal Case Studies
The US Geological Survey (USGS) resource assessment (Williams et al., 2009) outlined a mean 30GWe of undiscovered hydrothermal resource in the western US. One goal of the Geothermal Technologies Office (GTO) is to accelerate the development of this undiscovered resource. The Geothermal Technologies Program (GTP) Blue Ribbon Panel (GTO, 2011) recommended that DOE focus efforts on helping industry identify hidden geothermal resources to increase geothermal capacity in the near term. Increased exploration activity will produce more prospects, more discoveries, and more readily developable resources. Detailed exploration case studies akin to those found in oil and gas (e.g. Beaumont, et al, 1990) will give operators a single point of information to gather clean, unbiased information on which to build geothermal drilling prospects. To support this effort, the National Renewable Energy laboratory (NREL) has been working with the Department of Energy (DOE) to develop a template for geothermal case studies on the Geothermal Gateway on OpenEI. In fiscal year 2013, the template was developed and tested with two case studies: Raft River Geothermal Area (http://en.openei.org/wiki/Raft_River_Geothermal_Area) and Coso Geothermal Area (http://en.openei.org/wiki/Coso_Geothermal_Area). In fiscal year 2014, ten additional case studies were completed, and additional features were added to the template to allow for more data and the direct citations of data. The template allows for: Data - a variety of data can be collected for each area, including power production information, well field information, geologic information, reservoir information, and geochemistry information. Narratives ? general (e.g. area overview, history and infrastructure), technical (e.g. exploration history, well field description, R&D activities) and geologic narratives (e.g. area geology, hydrothermal system, heat source, geochemistry.) Exploration Activity Catalog - catalog of exploration activities conducted in the area (with dates and references.) NEPA Analysis ? a query of NEPA analyses conducted in the area (that have been catalogued in the OpenEI NEPA database.) In fiscal year 2015, NREL is working with universities to populate additional case studies on OpenEI. The goal is to provide a large enough dataset to start conducting analyses of exploration programs to identify correlations between successful exploration plans for areas with similar geologic occurrence models.
PoroTomo Natural Laboratory Horizontal and Vertical Distributed Acoustic Sensing Data
This dataset includes links to the PoroTomo DAS data in both SEG-Y and hdf5 (via h5py and HSDS with h5pyd) formats with tutorial notebooks for use. Data are hosted on Amazon Web Services (AWS) Simple Storage Service (S3) through the Open Energy Data Initiative (OEDI). Also included are links to the documentation for the dataset, Jupyter Notebook tutorials for working with the data as it is stored in AWS S3, and links to data viewers in OEDI for the horizontal (DASH) and vertical (DASV) DAS datasets. Horizontal DAS (DASH) data collection began 3/8/16, paused, and then started again on 3/11/2016 and ended 3/26/2016 using zigzag trenched fiber optic cabels. Vertical DAS (DASV) data collection began 3/17/2016 and ended 3/28/16 using a fiber optic cable through the first 363 m of a vertical well. These are raw data files from the DAS deployment at (DASH) and below (DASV) the surface during testing at the PoroTomo Natural Laboratory at Brady Hot Spring in Nevada. SEG-Y and hdf5 files are stored in 30 second files organized into directories by day. The hdf5 files available via HSDS are stored in daily files. Metadata includes information on the timing of recording gaps and a file count is included that lists the number of files from each day of recording. These data are available for download without login credentials through the free and publicly accessible Open Energy Data Initiative (OEDI) data viewer which allows users to browse and download individual or groups of files.
Seismic Survey 2016 Metadata at San Emidio, Nevada
1301 Vertical Component seismic instruments were deployed at San Emidio Geothermal field in Nevada in December 2016. The first record starts at 2016-12-05T02:00:00.000000Z (UTC) and the last record ends at 2016-12-11T14:00:59.998000Z (UTC). Data are stored in individual files in one-minute increments. Data includes seismic station locations, seismic data logger specifications, instrumentation specifications, descriptions of data, a fracture finding summary and the final report for the 2016 WHOLESCALE seismic survey done in San Emidio, Nevada.
Seismic Survey 2016 Data at San Emidio Nevada
In December 2016, 1301 vertical-component seismic instruments were deployed at the San Emidio Geothermal field in Nevada. The first record starts at 2016-12-05T02:00:00.000000Z (UTC) and the last record ends at 2016-12-11T14:00:59.998000Z (UTC). Data are stored in individual files in one-minute increments in SEGD and MSEED formats. See the metadata in GDR submission (linked below as "Seismic Survey 2016 Metadata at San Emidio Nevada") for details about the seismic station locations, seismic data logger specifications, instrumentation specifications, descriptions of data, a fracture finding summary, and the final report for the 2016 seismic survey done in San Emidio, Nevada.
WHOLESCALE: Seismic Survey Data from San Emidio Nevada 2021
This dataset includes raw and processed seismic data from the 2021 seismic survey at the San Emidio geothermal field in Nevada. In April and May 2021, 37 tri-axial short period seismographs were deployed in a 1.8km diameter cluster centered on 40.367278 N, 119.409019 W. The first data record started at 2021-04-06T07:09:10Z UTC and the last record ended at 2021-05-11T02:58:52Z UTC. The 37 stations included 29 SmartSolo IGU-16HR 3C all-in-one 5 Hz seismographs and 8 DataCube seismographs with 4.5 Hz HGS HG-6(B coil) tri-axial geophones. The raw format (level 0) data includes 353 GB of 500 sps SmartSolo data in native DLD format, 113 GB of 400 sps DataCube data in native DataCube format, and 3.4 GB of GPS data collected during the RTK GPS survey. The SAC data (level 1) files include 564 GB of hourly SAC files. The experiment was designed to monitor seismic activity before, during, and after the planned three-day plant maintenance shutdown April 19-21, 2021. The pumping stopped at 2021/04/19 12:51:45 UTC and resumed about 2021/04/21 21:00:00 UTC. The dataset is hosted in an AWS data lake, with an associated GDR data set providing the metadata. Links to both of these resources are included below. Additionally, this collection features data and metadata from a 2016 seismic survey at the same site for comparative analysis.
WHOLESCALE: Seismic Survey Metadata from San Emidio Nevada 2021
This is a collection of metadata from the 2021 seismic survey at the San Emidio geothermal field in Nevada. In April and May 2021, 37 tri-axial short period seismographs were deployed in a 1.8km diameter cluster centered on 40.367278 deg N, 119.409019 deg W. The first data record started at 2021-04-06T07:09:10Z UTC and the last record ended 2021-05-11T02:58:52Z UTC. The 37 stations included 29 SmartSolo IGU-16HR 3C all-in-one 5 Hz seismographs and 8 DataCube seismographs with 4.5 Hz HGS HG-6(B coil) tri-axial geophones. The raw format (level 0) data includes 353 GB of 500 sps SmartSolo data in native DLD format, 113 GB of 400 sps DataCube data in native DataCube format, and 3.4 GB of GPS data collected during the RTK GPS survey. The SAC data (level 1) files include 564 GB of hourly SAC files. The experiment was designed to monitor seismic activity before, during, and after the planned three-day plant maintenance shutdown April 19-21, 2021. The pumping stopped at 2021/04/19 12:51:45 UTC and resumed about 2021/04/21 21:00:00 UTC. The raw and processed data are in an associated GDR submission, linked below. The metadata here includes files containing experiment details, station locations, seismic data logger specifications, instrumentation specifications, and descriptions of data. Also included are data and metadata from a 2016 seismic survey at the same site.
Seismic Survey 2016 Data at Crescent Valley, Nevada
In September 2016, 989 vertical-component seismic instruments were deployed for 75 hours at the Crescent Valley greenfield geothermal play area in Nevada. Data were recorded 12/9/16 - 12/15/16. Data are stored in individual files in one-minute increments in SEGD formats. See the metadata in Crescent Valley Station Locations.sp1, Crescent Valley Observer Logs.xls, and the attached Metadata link for details about the seismic station locations, seismic data logger specifications, instrumentation specifications, descriptions of data, a fracture finding summary, and the final report for the 2016 seismic survey done in Crescent Valley, Nevada. Note that no discrete events were identified, and a 1750m x 2250m x 300m PSET volume of acoustic energy was delivered.
WHOLESCALE: Microseismic Event Catalog for San Emidio, Nevada 2022
This submission includes a high-precision seismic event catalog estimated from seismic data collected at San Emidio, Nevada from April to May 2022. The catalog lists the precise time, location, and magnitude of microseismic events recorded during this period. Both the seismic data and microseismic event catalog were produced as part of the Water & Hole Observations Leverage Effective Stress Calculations and Lessen Expenses (WHOLESCALE) project. Attached here are the microseismic event catalog, a link to the raw seismic data, and a detailed description of methods used to create the catalog.
Comparative Transcriptomics Among Four White Pine Species
Conifers are the dominant plant species throughout the high latitude boreal forests as well as some lower latitude temperate forests of North America, Europe, and Asia. As such, they play an integral economic and ecological role across much of the world. This study focused on the characterization of needle transcriptomes from four ecologically important and understudied North American white pines within the Pinus subgenus Strobus. The populations of many Strobus species are challenged by native and introduced pathogens, native insects, and abiotic factors. RNA from the needles of western white pine (Pinus monticola), limber pine (Pinus flexilis), whitebark pine (Pinus albicaulis), and sugar pine (Pinus lambertiana) was sampled, Illumina short read sequenced, and de novo assembled. The assembled transcripts and their subsequent structural and functional annotations were processed through custom pipelines to contend with the challenges of non-model organism transcriptome validation. Orthologous gene family analysis of over 58,000 translated transcripts, implemented through Tribe-MCL, estimated the shared and unique gene space among the four species. This revealed 2025 conserved gene families, of which 408 were aligned to estimate levels of divergence and reveal patterns of selection. Specific candidate genes previously associated with drought tolerance and white pine blister rust resistance in conifers were investigated.
CROCUS Air Quality Data at Chicago State University Prairie Site
The Air Quality Transmitter (AQT) (Vaisala AQT530) instrument provides observations on meteorological conditions, including particulate matter (PM2.5, PM10), gas species concentrations (Nitric Oxide (NO), Nitrogen Dioxide (NO2), Ozone (O3)), and environment temperature and moisture. These measurements are critical for understanding air quality. These measurements are useful for understanding changes in aerosol properties, air quality research, and comparing to model experiments especially in urban environments.This dataset is from the Department of Energy Office of Science funded project, Community Research on Urban and Climate Science (CROCUS) (https://crocus-urban.org/). Datasets are stored in the netCDF data format, and we we encourage users to make use the associated toolkits available from Unidata (https://www.unidata.ucar.edu/software/netcdf/), Project Pythia (https://foundations.projectpythia.org/core/data-formats/netcdf-cf.html), and our “Instrument Cookbooks” (https://crocus-urban.github.io/instrument-cookbooks) for more information on how to process the metadata-rich datasets.
CROCUS Air Quality Data at Argonne National Laboratory Prairie Site
The AQT (Vaisala AQT530) instrument provides observations on meteorological conditions, including particulate matter (PM2.5, PM10), gas species concentrations (NO, NO2, O3, CO), and environment temperature and moisture. These measurements are critical for understanding air quality. These measurements are useful for understanding changes in aerosol properties, air quality research, and comparing to model experiments especially in urban environments. These measurements are collected at the Argonne Testbed for Multiscale Observational Science (ATMOS), a prairie field site at Argonne National Laboratory in Lemont, Illinois. Data is available in the netCDF data format, we encourage data users review documentation through Project Pythia to understand how to work with netCDF data https://foundations.projectpythia.org/core/data-formats/netcdf-cf.html. Each file contains one day's worth of data (24 hours, starting at 0000 UTC). The data is aggregated into daily frequency to make it easier to process multiple days, and compress the higher-resolution fields. File naming convention includes the project (CROCUS), location (atmos), data level (raw, a1), date (year, month, day), and hour (0000).