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At least 145 records · Page 8

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DOE OSTI2025

MicroFisher: Fungal taxonomic classification for metatranscriptomic and metagenomic data using multiple short hypervariable markers

AbstractProfiling the taxonomic and functional composition of microbes using metagenomic (MG) and metatranscriptomic (MT) sequencing is advancing our understanding of microbial functions. However, the sensitivity and accuracy of microbial classification using genome– or core protein-based approaches, especially the classification of eukaryotic organisms, is limited by the availability of genomes and the resolution of sequence databases. To address this, we propose the MicroFisher, a novel approach that applies multiple hypervariable marker genes to profile fungal communities from MGs and MTs. This approach utilizes the hypervariable regions of ITS and large subunit (LSU) rRNA genes for fungal identification with high sensitivity and resolution. Simultaneously, we propose a computational pipeline (MicroFisher) to optimize and integrate the results from classifications using multiple hypervariable markers. To test the performance of our method, we applied MicroFisher to the synthetic community profiling and found high performance in fungal prediction and abundance estimation. In addition, we also used MGs from forest soil and MTs of root eukaryotic microbes to test our method and the results showed that MicroFisher provided more accurate profiling of environmental microbiomes compared to other classification tools. Overall, MicroFisher serves as a novel pipeline for classification of fungal communities from MGs and MTs.

Wang, Haihua↗

NASA NTRS1994

Arctic polar stratospheric cloud measurements by means of a four wavelength depolarization lidar

A four wavelength depolarization backscattering lidar has been operated during the European Arctic Stratospheric Ozone Experiment (EASOE) in Sodankyl, in the Finnish Arctic. The lidar performed measurements during the months of December 1991, January, February and March 1992. The Finnish Meteorological Institute during the same period launched regularly three Radiosondes per day, and three Ozone sondes per week. Both Mt. Pinatubo aerosols and Polar Stratospheric Clouds were measured. The use of four wavelengths, respectively at 355 nm, 532 nm , 750 nm, and 850 nm permits an inversion of the lidar data to determine aerosol particle size. The depolarization technique permits the identification of Polar Stratospheric Clouds. Frequent correlation between Ozone minima and peaks in the Mt. Pinatubo aerosol maxima were detected. Measurements were carried out both within and outside the Polar Vortex.

Stefanutti, L.↗

NASA NTRS1973

Thermal surveillance of volcanoes of the Cascade Range utilizing ERTS DCP systems and imagery

The author has identified the following significant results. Successful installation of DCP sets at Mt. Baker volcano and at Mt. St. Helens volcano, Washington, completed the installation phase of experiment SR 251. Aerial IR scanner missions over the Cascade volcanoes were completed with a mission April 29th which provided thermographic IR images of Glacier Peak, Mt. Baker, Mt. St. Helens, Mt. Rainier, and Mt. Adams. Earlier repetitive coverage had obtained IR images depicting thermal anomalies of Lassen Volcanic National Park, Shasta, Crater Lake, and the northern Cascades. The April 29th mission and subsequent ground reconnaissance yielded new information on 48 heretofore unreported pinpoint radiation anomalies, of possible fumarolic origin, on the flanks of Mt. Rainier and several new thermal points on Mt. Baker. Cartographic plots of these anomalies, in conjunction with surface temperature and other data obtained as a result of experiment SR 251 will permit estimation of radiation heat loss during the repose periods of the host volcanoes.

Friedman, J. D.↗

NASA NTRS1973

The comparative evaluation of ERTS-1 imagery for resource inventory in land use planning

The author has identified the following significant results. Multidiscipline team interpretation and mapping of resources for Crook County is nearly complete on 1:250,000 scale enlargements of ERTS-1 imagery. Maps of geology, landforms, soils and vegetation-land use are being interpreted to show limitations, suitabilities and geologic hazards for land use planning. Mapping of lineaments and structures from ERTS-1 imagery has shown a number of features not previously mapped in Oregon. A timber inventory of Ochoco National Forest has been made. Inventory of forest clear-cutting practices has been successfully demonstrated with ERTS-1 color composites. Soil tonal differences in fallow fields shown on ERTS-1 correspond with major soil boundaries in loess-mantled terrain. A digital classification system used for discriminating natural vegetation and geologic materials classes has been successful in separation of most major classes around Newberry Cauldera, Mt. Washington and Big Summit Prairie. Computer routines are available for correction of scanner data variations; and for matching scales and coordinates between digital and photographic imagery. Methods of Diazo film color printing of computer classifications and elevation-slope perspective plots with computer are being developed.

Simonson, G. H.↗

NASA NTRS1973

Water-vapor measures - Mt. Lemmon area

Daytime atmospheric water-vapor measures were continued for Mt. Lemmon, the Catalina Observatory, and Tucson. As before (Lunar and Planetary Laboratory Communications, No. 158), the three sets are closely related in terms of their altitude differences, with the average empirically-determined scale-height value, 2.3 km. During the winter and spring of 1971 observations were made for more than 90% of the days. The measures are tabulated and reduced to Mt. Lemmon. The calibration was continued to higher values by means of atmospheric radiosonde data.

Kuiper, G. P.↗

NASA NTRS1975

An interdisciplinary analysis of multispectral satellite data for selected cover types in the Colorado Mountains, using automatic data processing techniques

The author has identified the following significant results. MSS data on the area near Lake Hope and San Miguel on the Ophir and Mt. Wilson quadrangles were classified. Two vein-like areas of alteration were apparent, along with the hill wash composed primarily of altered rock. These areas were quite delineated. A small oval patch of shadowed alteration was classified in a location in which alteration was previously unnoticed during an airphoto study.

Hoffer, R. M.↗

NASA NTRS1985

Stress assessment and spectral characterization of suspected acid deposition damage in red spruce (Picea Rubens) from Vermont

The effects of acid deposition on Picea rubens are studied. The Picea rubens located at Camels Hump Mt., Mt. Ascutney, and Ripton, VT were analyzed using stress level evaluations, in situ spectral data, pressure bomb analysis, and aircraft sensors. Spruce stress per circular plot and percent spruce mortality are calculated. The relation between stress levels and elevation and exposure and weather patterns is examined. It is observed that variations in the reflectance curves of the foliage and branches are related to cellular health, the type of cellular arrangement, and the degree of leaf tissue hydration; the leaf and twig specimens from high stress sites are more reflective in the red portion of the visible and less reflective in the NIR portion of the spectrum. The pressure bomb data reveal that the xylem water tension is higher in specimens from high stress sites. It is noted that remote sensing permits discrimination and mapping of suspected acid deposition damage.

Rock, B. N.↗

NASA NTRS1989

Remote sensing of global snowpack energy and mass balance: In-situ measurements on the snow of interior and Arctic Alaska

Observations led to a study of the physical properties of snow and the processes which operate on it. These observations included microwave brightness temperatures in interior Alaska which revealed: (1) up to three times more variability from one cell (1/2 degree latitude x 1/2 degree longitude) to the next in winter than in summer (5 to 15 K in winter and about 5 K in summer); (2) the overall range of temperature from week to week is about seven times greater in winter than in summer; (3) the microwave brightness temperature is about 25 K less than air temperature during summer but 35 to 60 K less during winter; and (4) the presence of snow cover appears to contribute to increasing the difference between air temperature and brightness temperature. The role of irregular substrate under the snow in enhancing convection has been studied with particular attention to variations in snow cover on water surfaces and in forested regions. LANDSAT imagery has been obtained to prepare a classification of ground surface types of the area. The extreme conditions of the 1988 to 1989 winter are discussed with respect to comparing the microwave data sets from 1985, and before, up to the present. The use of the Mt. Wrangell area as aerial photogrammetric controls for glacier measurements is given attention.

Benson, Carl S.↗

NASA NTRS2015

Potential Cement Phases in Sedimentary Rocks Drilled by Curiosity at Gale Crater, Mars

The Mars Science Laboratory rover Curiosity has encountered a variety of sedimentary rocks in Gale crater with different grain sizes, diagenetic features, sedimentary structures, and varying degrees of resistance to erosion. Curiosity has drilled three rocks to date and has analyzed the mineralogy, chemical composition, and textures of the samples with the science payload. The drilled rocks are the Sheepbed mudstone at Yellowknife Bay on the plains of Gale crater (John Klein and Cumberland targets), the Dillinger sandstone at the Kimberley on the plains of Gale crater (Windjana target), and a sedimentary unit in the Pahrump Hills in the lowermost rocks at the base of Mt. Sharp (Confidence Hills target). CheMin is the Xray diffractometer on Curiosity, and its data are used to identify and determine the abundance of mineral phases. Secondary phases can tell us about aqueous alteration processes and, thus, can help to elucidate past aqueous environments. Here, we present the secondary mineralogy of the rocks drilled to date as seen by CheMin and discuss past aqueous environments in Gale crater, the potential cementing agents in each rock, and how amorphous materials may play a role in cementing the sediments.

Rampe, E. B.↗

DOE OSTI2022

Design and demonstration of a low‐field magnetic resonance imaging rhizotron for in‐field imaging of energy sorghum roots

Abstract Root phenotyping provides critical information to plant breeders for developing varieties with improved drought tolerance, greater root biomass, and greater nutrient use efficiency. Phenotyping roots in the natural environment is important for understanding the effect of the soil environment on root genotypic expressions. The goal of this work was to design and test a field‐scale mobile low‐field magnetic resonance imaging (LF‐MRI) Rhizotron that produces actionable root phenotyping data. We demonstrated this novel technology for root visualization and quantification using a LF‐MRI Rhizotron operating at 47 mT with two soil types. The LF‐MRI Rhizotron weights 453 kg, with a height of 90 cm, a diameter of 28 cm and an imaging field of view of 28 cm × 28 cm. The unit was operated in a Belk clay (Entic Hapluderts) and Weswood silt loam (Udifluventic Halustepts) generating 2‐D and 3‐D image data sets. The 2‐D image data had a collection time of 16.5 min per image at an image resolution of 2.2 mm per pixel. The 3‐D data had a collection time of 13 h per image with a 2.2 × 2.2 × 2.2 mm voxel resolution. Low‐field magnetic resonance imaging worked well for visualizing roots in moderate to high clay soils, demonstrating the potential for this technology; however, the broad application of this platform is hampered due to the prohibitively long scanning time to obtain 3‐D images. By increasing the field strength, and therefore the signal‐to‐noise ratio, faster scan times can enable a more useful system for root phenotyping.

Bagnall, G. Cody↗

NASA NTRS1975

Geology and forestry classification from ERTS-1 digital data

Computer classifications into seven and ten classes of two areas in central Oregon of interest to geology and forestry demonstrate the extraction of information from ERTS-1 data. The area around Newberry Caldera was classified into basalt, rhyolite obsidian, pumice flats, Newberry pumice, ponderosa pine, lodgepole pine, and water classes. The area around Mt. Washington was classified into two basalts, three forest, two clearcut, burn, snow, and water classes. Both also include an unclassified category. Significant details that cannot be extracted from photographic reconstitutions of the data emerge from these classifications, such as moraine locations and paleowind directions. Spectral signatures for the various rocks are comparable to those published elsewhere.

Lawrence, R. D.↗

NASA NTRS1975

Galilean satellite mutual occultation data processing

Results of processing seven mutual occultation lightcurves are presented. The lightcurves were obtained using the 60-in. telescope (152 cm) at Mt. Wilson to observe six J1 occulting J2 events and one J3 occulting J2 event. Using a uniformly illuminated disk model, local satellite Jovicentric longitude corrections of 675 plus or minus 150 km, 275 plus or minus 240 km, and 1175 plus or minus 350 km for J1, J2, and J3, respectively, were determined. These corrections enabled the event midpoint times to be computed to within 5 sec of the observed midpoint times for all seven events. These longitude corrections have been verified by Pioneer 10 and recent (1973 and 1974) conventional Jovian eclipse observations. A relative J1:J2 out-of-plane error of less than a few hundred kilometers has been indicated; however, it appears that the relative J3:J2 out-of-plane error is larger than 600 km. Deficiencies in both the uniformly illuminated disk model and Sampson's theory of the Galilean satellite motions for the reduction of mutual event data are described.

Duxbury, T. C.↗

DOE OSTI2023

Elastic functional changepoint detection of climate impacts from localized sources

Detecting changepoints in functional data has become an important problem as interest in monitoring of climate phenomenon has increased, where the data is functional in nature. Here, the observed data often contains both amplitude (y-axis) and phase (x-axis) variability. If not accounted for properly, true changepoints may be undetected, and the estimated underlying mean change functions will be incorrect. In this article, an elastic functional changepoint method is developed which properly accounts for these types of variability. The method can detect amplitude and phase changepoints which current methods in the literature do not, as they focus solely on the amplitude changepoint. This method can easily be implemented using the functions directly or can be computed via functional principal component analysis to ease the computational burden. We apply the method and its nonelastic competitors to both simulated data and observed data to show its efficiency in handling data with phase variation with both amplitude and phase changepoints. We use the method to evaluate potential changes in stratospheric temperature due to the eruption of Mt. Pinatubo in the Philippines in June 1991. Using an epidemic changepoint model, we find evidence of a increase in stratospheric temperature during a period that contains the immediate aftermath of Mt. Pinatubo, with most detected changepoints occurring in the tropics as expected.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS1994

Variability in daily, zonal mean lower-stratospheric temperatures

Satellite data from the microwave sounding unit (MSU) channel 4, when carefully merged, provide daily zonal anomalies of lower-stratosphere temperature with a level of precision between 0.01 and 0.08 C per 2.5 deg latitude band. Global averages of these daily zonal anomalies reveal the prominent warming events due to volcanic aerosol in 1982 (El Chichon) and 1991 (Mt. Pinatubo), which are on the order of 1 C. The quasibiennial oscillation (QBO) may be extracted from these zonal data by applying a spatial filter between 15 deg N and 15 deg S latitude, which resembles the meridional curvature. Previously published relationships between the QBO and the north polar stratospheric temperatures during northern winter are examined but were not found to be reproduced in the MSU4 data. Sudden stratospheric warmings in the north polar region are represented in the MSU4 data for latitudes poleward of 70 deg N. In the Southern Hemisphere, there appears to be a moderate relationship between total ozone concentration and MSU4 temperatures, though it has been less apparent in 1991 and 1992. In terms of empirical modes of variability, the authors find a strong tendency in EOF 1 (39.2% of the variance) for anomalies in the Northern Hemisphere polar regions to be counterbalanced by anomalies equatorward of 40 deg N and 40 deg S latitudes. In addition, most of the modes revealed significant power in the 15-20 day period band.

Christy, John R.↗

NASA NTRS1993

Effects of Pinatubo aerosol on stratospheric ozone at mid-latitudes

Mid-latitude ozone data from ER-2 aircraft measurements in 1989, 1991, and 1992 were examined to determine how sulfate aerosols from the eruption of Mt. Pinatubo had affected ozone at about 18 km. N2O was used as a tracer to help distinguish between chemical and dynamical aerosol effects. At 20-45 deg N in February 1992, ozone was about 10-20% lower than February 1989 and 1991, with respect to N2O. Data from Aug. 1991 - Mar. 1992 showed changes in ozone with respect to N2O, but the magnitude of those changes was not correlated with the magnitude of the changes in aerosol surface area density.

Weaver, A.↗

NASA NTRS1993

Effects of Pinatubo Aerosol on Stratospheric Zone at Mid-Lattiudes

Mid-latitude ozone data from ER-2 aircraft measurements in 1989, 1991 and 1992 were examined to determine how sulfate aerosols from the eruption of Mt. Pinatubo had affected ozone at about 18 km. N2O was used as a tracer to help distinguish between chemical and dynamical aerosol effects. At 20-45 deg N in February 1992, ozone was about 10-20% lower than February 1989 and 1991, with respect to N2O. Data from Aug.1991 - Mar. 1992 showed changes in ozone with respect to N2O, but the magnitude of those changes was not correlated with the magnitude of the changes in aerosol surface area density.

Weaver, A.↗

NASA NTRS2001

Integration of Atmospheric, Laboratory, and Satellite Data to Estimate Biospheric Sources of Oxygenated Organic Compounds

For this study, we intend to use a long time series of coarse resolution (8 km and quarter degree) vegetation leaf area index (LAI) and fraction of absorbed PAR (FAPAR) derived from AVHRR data for the time period July 1981 through Dec 2001. The Global Inventory Monitoring and Modeling Studies (GIMMS) data set of AVHRR channel reflectances currently was developed by Dr. Tucker at NASA Goddard. The spatial resolution of the data is 8 km, and a 15-day maximum Normalized Difference Vegetation Index (NDVI) composite time series for the period July 1981 through December 1999 has been produced. The data processing included improved navigation, calibration for intra- and inter-sensor variations, partial atmospheric correction for gaseous absorption and scattering. Stratospheric aerosol effects associated with volcanic eruptions were corrected using a combination of the methods for the data from the period April 1982 - December 1984 (El Chichon) and June 1991 - December 1993 (Mt. Pinatubo).

Myneni, Ranga B.↗

NASA NTRS1988

Ionosphere-thermosphere momentum coupling at solar maximum and solar minimum from DE-2 and AE-C data

DE-2 and AE-C measurements of plasma and neutral densities were used to derive time constants for momentum transfer (MT) to neutrals from ions in the high-latitude thermosphere. The MT time constants for solar cycle maximum (DE-2) and for solar cycle minimum (AE-C) were averaged and binned according to geomagnetic latitude and LT to provide a quantitative measure for the tightness of ion-neutral momentum coupling (MC) in the 250-350-km altitude range. Comparisons with results obtained using the Chiu and MSIS-83 empirical models have provided an indication of the accuracy with which thermospheric general circulation models quantitatively reproduce the MC between ions and neutrals in the high-latitude F-region.

Ponthieu, J. J.↗