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At least 109 records · Page 6

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DOE OSTI2023

Circulating SARS-CoV-2 + megakaryocytes are associated with severe viral infection in COVID-19

Several independent lines of evidence suggest that megakaryocytes are dysfunctional in severe COVID-19. Herein, we characterized peripheral circulating megakaryocytes in a large cohort of inpatients with COVID-19 and correlated the subpopulation frequencies with clinical outcomes. Using peripheral blood, we show that megakaryocytes are increased in the systemic circulation in COVID-19, and we identify and validate S100A8/A9 as a defining marker of megakaryocyte dysfunction. We further reveal a subpopulation of S100A8/A9 + megakaryocytes that contain severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) protein and RNA. Using flow cytometry of peripheral blood and in vitro studies on SARS-CoV-2–infected primary human megakaryocytes, we demonstrate that megakaryocytes can transfer viral antigens to emerging platelets. Mechanistically, we show that SARS-CoV-2–containing megakaryocytes are nuclear factor κB (NF-κB)-activated, via p65 and p52; express the NF-κB–mediated cytokines interleukin-6 (IL-6) and IL-1β; and display high surface expression of Toll-like receptor 2 (TLR2) and TLR4, canonical drivers of NF-κB. In a cohort of 218 inpatients with COVID-19, we correlate frequencies of megakaryocyte subpopulations with clinical outcomes and show that SARS-CoV-2–containing megakaryocytes are a strong risk factor for mortality and multiorgan injury, including respiratory failure, mechanical ventilation, acute kidney injury, thrombotic events, and intensive care unit admission. Furthermore, we show that SARS-CoV-2 + megakaryocytes are present in lung and brain autopsy tissues from deceased donors who had COVID-19. To our knowledge, this study offers the first evidence implicating SARS-CoV-2 + peripheral megakaryocytes in severe disease and suggests that circulating megakaryocytes warrant investigation in inflammatory disorders beyond COVID-19.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2024

A cell-based Papain-like Protease (PLpro) activity assay for rapid detection of active SARS-CoV-2 infections and antivirals

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and its variants are a continuous threat to human life. An urgent need remains for simple and fast tests that reliably detect active infections with SARS-CoV-2 and its variants in the early stage of infection. Here we introduce a simple and rapid activity-based diagnostic (ABDx) test that identifies SARS-CoV-2 infections by measuring the activity of a viral enzyme, Papain-Like protease (PLpro). The test system consists of a peptide that fluoresces when cleaved by SARS PLpro that is active in crude, unprocessed lysates from human tongue scrapes and saliva. Test results are obtained in 30 minutes or less using widely available fluorescence plate readers, or a battery-operated portable instrument for on-site testing. Proof-of-concept was obtained in a study on clinical specimens collected from patients with COVID-19 like symptoms who tested positive (n = 10) or negative (n = 10) with LIAT RT-PCR using nasal mid turbinate swabs. When saliva from these patients was tested with in-house endpoint RT-PCR, 17 were positive and only 5 specimens were negative, of which 2 became positive when tested 5 days later. PLpro activity correlated in 17 of these cases (3 out of 3 negatives and 14 out of 16 positives, with one invalid specimen). Despite the small number of samples, the agreement was significant (p value = 0.01). Two false negatives were detected, one from a sample with a late Ct value of 35 in diagnostic RT-PCR, indicating that an active infection was no longer present. The PLpro assay is easily scalable and expected to detect all viable SARS-CoV-2 variants, making it attractive as a screening and surveillance tool. Additionally, we show feasibility of the platform as a new homogeneous phenotypic assay for rapid screening of SARS-CoV-2 antiviral drugs and neutralizing antibodies.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2022

Six-Month Outcomes of Infants Born to People With SARS-CoV-2 in Pregnancy

OBJECTIVES To assess the 6-month incidence of laboratory-confirmed severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection, postnatal care, hospitalization, and mortality among infants born to people with laboratory-confirmed SARS-CoV-2 infection during pregnancy by timing of maternal infection. METHODS Using a cohort of liveborn infants from pregnancies with SARS-CoV-2 infections in the year 2020 from 10 United States jurisdictions in the Surveillance for Emerging Threats to Mother and Babies Network, we describe weighted estimates of infant outcomes from birth through 6 months of age from electronic health and laboratory records. RESULTS Of 6601 exposed infants with laboratory information through 6 months of age, 1.0% (95% confidence interval: 0.8–1.1) tested positive, 19.1% (17.5–20.6) tested negative, and 80.0% (78.4–81.6) were not known to be tested for SARS-CoV-2. Among those ≤14 days of age, SARS-CoV-2 infection occurred only with maternal infection ≤14 days before delivery. Of 3967 infants with medical record abstraction, breastmilk feeding initiation was lower when maternal infection occurred ≤14 days before delivery compared with >14 days (77.6% [72.5–82.6] versus 88.3% [84.7–92.0]). Six-month all-cause hospitalization was 4.1% (2.0–6.2). All-cause mortality was higher among infants born to people with infection ≤14 days (1.0% [0.4–1.6]) than >14 days (0.3% [0.1–0.5]) before delivery. CONCLUSIONS Results are reassuring, with low incidences of most health outcomes examined. Incidence of infant SARS-CoV-2, breastmilk feeding initiation, and all-cause mortality differed by timing of maternal infection. Strategies to prevent infections and support pregnant people with coronavirus disease 2019 may improve infant outcomes.

Pediatrics↗

DOE OSTI2022

Monitoring SARS-CoV-2 in wastewater [Slides]

The monitoring of SARS-CoV-2 through individual testing is subject to inaccuracies. Wastewater biosurveillance has been used around the world to detect the presence of drugs, viruses, and other chemicals present in a population. Fecal shedding of SARS-CoV-2 implies that wastewater can be analyzed in order to detect varying levels of the virus within a given community. Pepper Mild Mottle Virus is present consistently in human fecal matter, and can be used to normalize the amount of SARS-CoV-2 detected. In this experiment, the amount of SARS-CoV-2 in the wastewater sample was compared to the amount of PMMoV present. Wastewater samples were separated into three fractions: direct wastewater, a solid pellet, and filter paper extract. An RT-qPCR test was used on the extracted RNA from each fraction to detect the relative amount of SARS-CoV-2 and PMMoV copies in each sample. The amount of SARS-CoV-2 was successfully normalized to the amount of PMMoV.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS1979

Multisensor analysis of hydrologic features in the Wind River Range, Wyoming with emphasis on the SEASAT SAR

The author has identified the following significant results. Analysis of imagery obtained over west-central Wyoming indicates that Seasat SAR has capability for hydrologic mapping. Both the L-Band (Seasat) and the X-Band (aircraft) SAR imagery were useful for observing drainage detail. Streams have bright signatures on the SAR imagery because the riparian vegetation produces a rough surface and thus high radar returns. Lakes appear relatively bright on the Seasat image presumably in response to surface ripples and waves induced by wind action. SAR imagery did not reveal snow at either the 23.5 cm (L-Band) or 2.8 cm (X-Band) wavelengths. Comparing Seasat and X-Band aircraft SAR imagery to LANDSAT RBV imagery, U-2 photography, and topographic maps of the Wind River Range, it appears that the SAR data do not seem to provide as much hydrologic information as do the other sensors in the visible and near infrared portions of the spectrum.

Foster, J. L.↗

NASA NTRS1986

The X-SAR System

During the past few years, there has been significant progress made in the planning for an X-band SAR, designed to fly in the shuttle together with the SIR-C system of NASA/JPL. New work and studies have been initiated to enable the goal of two missions in 1990 to be met. The antennas of X-SAR and SIR-C will be placed side-by-side on a pivoted steerable foldable structure, which will allow antenna movement without changing the attitude of the shuttle. This figure also shows the pallet, underneath the antenna structure, which houses the electronic sub-systems of both radars. Although the two radar systems, X-band SAR and the L- and C-band SAR of SIR-C, have different technical designs, their overall system performance, in terms of image quality, is expected to be similar. The current predicted performance of the X-SAR system based on results of the continuing Phase B studies is detailed. Differences between the performance parameters of X-SAR and those of SIR-C are only detailed in as far as they affect planning decisions to be made by experimenters.

Oettl, Herwig↗

NASA NTRS1988

Development of a satellite SAR image spectra and altimeter wave height data assimilation system for ERS-1

The applicability of ERS-1 wind and wave data for wave models was studied using the WAM third generation wave model and SEASAT altimeter, scatterometer and SAR data. A series of global wave hindcasts is made for the surface stress and surface wind fields by assimilation of scatterometer data for the full 96-day SEASAT and also for two wind field analyses for shorter periods by assimilation with the higher resolution ECMWF T63 model and by subjective analysis methods. It is found that wave models respond very sensitively to inconsistencies in wind field analyses and therefore provide a valuable data validation tool. Comparisons between SEASAT SAR image spectra and theoretical SAR spectra derived from the hindcast wave spectra by Monte Carlo simulations yield good overall agreement for 32 cases representing a wide variety of wave conditions. It is concluded that SAR wave imaging is sufficiently well understood to apply SAR image spectra with confidence for wave studies if supported by realistic wave models and theoretical computations of the strongly nonlinear mapping of the wave spectrum into the SAR image spectrum. A closed nonlinear integral expression for this spectral mapping relation is derived which avoids the inherent statistical errors of Monte Carlo computations and may prove to be more efficient numerically.

Hasselmann, Klaus↗

NASA NTRS1990

The effect of changing environmental conditions on microwave signatures of forest ecosystems - Preliminary results of the March 1988 Alaskan aircraft SAR experiment

In preparation for the ESA ERS-1 mission, a series of multitemporal, multifrequency, multipolarization aircraft SAR data sets were acquired near Fairbanks in March 1988. P-, L-, and C-band data were acquired with the NASA/JPL Airborne SAR on five different days over a period of two weeks. The airborne data were augmented with intensive ground calibration data as well as detailed simultaneous in situ measurements of the geometric, dielectric, and moisture properties of the snow and forest canopy. During the time period over which the SAR data were collected, the environmental conditions changed significantly; temperatures ranged from unseasonably warm (1 to 9 C) to well below freezing (-8 to -15 C), and the moisture content of the snow and trees changed from a liquid to a frozen state. The SAR data clearly indicate the radar return is sensitive to these changing environmental factors, and preliminary analysis of the L-band SAR data shows a 0.4 to 5.8 dB increase (depending on polarization and canopy type) in the radar cross section of the forest stands under the warm conditions relative to the cold. These SAR observations are consistent with predictions from a theoretical scattering model.

Way, Jobea↗

NASA NTRS1992

ERS-1 SAR ice routing of l'Astrolabe through the Northeast passage

The use of Synthetic Aperture Radar (SAR) data from the satellite ERS-1 to assist the French polar vessel 'L'Astrolabe' during its navigation through Artic sea ice in the Northeast Passage is reported. The ship spent one month on the voyage from Europe to Japan, and high resolution SAR images and ice maps based on SAR images from ERS-1 and Special Sensor Microwave/Imager were telefaxed to the ship using the Inmarsat system. The time delay from observation to the reception of SAR images aboard the ship varied from 6 hours to two days. The quality of these ice maps was compared with Russian ice maps and observations from the ship. The SAR imagery provided detailed information on ice floe distribution, ice concentration, ice types, open leads, and tracks in ice from icebreakers. The response from the Russian ice specialists on the quality of the SAR ice maps was very positive.

Johannessen, O. M.↗

NASA NTRS1992

SAR calibration - An overview

Remote sensing with synthetic aperture radars (SAR's) is a rapidly developing field. Calibration of these sensors is required for the establishment of relationships between radar backscatter and geographical parameters. A review of recent progress in SAR calibration is presented. The quantities measured by SAR are defined and mathematical formulations of the three basic types of SAR images are developed. The establishment of scientific requirements for calibration and the difficulties involved are discussed. Image quality assessment is reviewed and the problems of radiometric calibration of SAR images using the radar equation and internal and external approaches are considered. Polarimetric radar calibration and the development of the necessary algorithms are described. Interferometric phase calibration and its associated problems are reviewed and future challenges in SAR calibration are discussed.

Freeman, Anthony↗

NASA NTRS1993

On evaluating the accuracy of SAR sea-ice classification using multifrequency polarimetric AIRSAR data

We investigate how multifrequency and polarimetric synthetic aperture radar (SAR) imagery enhances present capability to discriminate different ice conditions in single-frequency, single-polarization satellite SAR data. Frequencies considered are C- (lambda = 5.6cm), L- (lambda = 24cm) and P- (lambda = 68cm) band. Radar backscatter characteristics of six radiometrically and polarimetrically distinct ice types are selected from a cluster analysis of the multifrequency polarimetric SAR data and used to classify SAR images. Validation of these ice conditions is based on information provided by aerial photos, weather and ice surface measurements acquired at an ice camp, together with airborne passive microwave imagery, and visual analysis of the SAR data. The six identified sea-ice types are: (1) multiyear sea-ice; (2) compressed first year ice; (3) first year rubble and ridges; (4) first year rough ice; (5) first year smooth ice; and (6) thin ice. Open water is absent in all analyzed data. Classification of the SAR imagery into those six ice types is performed using a Bayesian Maximum A Posteriori classifier. Two complete scenes acquired at different dates in different locations are classified. The scenes were chosen such that they are representative of typical ice conditions in the Beaufort Sea in March 1988 and because ancillary information is available for validating the segmentation of various ice surface conditions.

Drinkwater, Mark R.↗

NASA NTRS1990

Ground truth measurement for the analysis of airborne SAR data recorded over Oberpfaffenhofen, FRG, 1989

As a preliminary investigation to the joint multiparameter SIR-C/X-SAR shuttle experiment of NASA/JPL (USA), DLR (FRG), and PSN (Italy) which is scheduled for the year 1992 an airborne SAR campaign was conducted over Oberpfaffenhofen, FRG, in August 1989. Primarily this campaign was planned to test and verify equipment and algorithms developed at the DLR to calibrate multifrequency polarimetric SAR data. Oberpfaffenhofen is designated as one of the super test sites for the SIR-C/X-SAR experiment which will be imaged under all circumstances except severe mission errors. A super test site drives radar parameters and look directions and the recorded SAR data will be calibrated. In addition ancillary data will be available for the site. During the airborne STAR campaign conducted in the week of August 14th 1989 various sensor types were used to record remote sensing data over the calibration test site and its vicinity: the polarimetric DC-8 JPL-SAR (P-, L-, C-band), the DLR airborne SAR (C-, X-band), color infrared aerial photography (DLR), and the truck-mounted scatterometer (C- and X-band) of the Institute for Navigation, University of Stuttgart (INS). Because of this variety of different sensor types used and out of the fact that sufficiently large forested and agriculturally used areas were planned to be covered by these sensors, the interest of several German research groups involved in investigations concerning SAR land applications arose. The following groups carried out different ground-truth measurements: University of Bonn, Institute for plant cultivation (plant morphology and moisture content); University of Braunschweig, Institute for Geography (soil moisture and surface roughness); University of Freiburg, Institute for Geography (dielectric soil properties, landuse); and University of Munich, Institute for Geography (landuse inventory, plant, surface, and soil parameters). This paper presents the joint ground truth activities of the Institute for Geography, University of Munich, and the German Remote Sensing Data Center of the DLR.

Bayer, T.↗

NASA NTRS1996

Operational Use of Civil Space-Based Synthetic Aperture Radar (SAR)

Synthetic Aperture Radar (SAR) is a remote-sensing technology which uses the motion of the aircraft or spacecraft carrying the radar to synthesize an antenna aperture larger than the physical antenna to yield a high-spatial resolution imaging capability. SAR systems can thus obtain high-spatial resolution geophysical measurements of the Earth over wide surface areas, under all-weather, day/night conditions. This report was prepared to document the results of a six-month study by an Ad Hoc Interagency Working Group on the Operational Use of Civil (i.e., non-military) Space-based Synthetic Aperture Radar (SAR). The Assistant Administrator of NOAA for Satellite and Information Services convened this working group and chaired three meetings of the group over a six-month period. This action was taken in response to a request by the Associate Administrator of NASA for Mission to Planet Earth for an assessment of operational applications of SAR to be accomplished in parallel with a separate study requested of the Committee on Earth Studies of the Space Studies Board of the National Research Council on the scientific results of SAR research missions. The representatives of participating agencies are listed following the Preface. There was no formal charter for the working group or long term plans for future meetings. However, the working group may be reconstituted in the future as a coordination body for multiagency use of operational SAR systems.

Montgomery, Donald R.↗

NASA NTRS1997

Advanced Algorithms and High-Performance Testbed for Large-Scale Site Characterization and Subsurface Target Detecting Using Airborne Ground Penetrating SAR

A team of US Army Corps of Engineers, Omaha District and Engineering and Support Center, Huntsville, let Propulsion Laboratory (JPL), Stanford Research Institute (SRI), and Montgomery Watson is currently in the process of planning and conducting the largest ever survey at the Former Buckley Field (60,000 acres), in Colorado, by using SRI airborne, ground penetrating, Synthetic Aperture Radar (SAR). The purpose of this survey is the detection of surface and subsurface Unexploded Ordnance (UXO) and in a broader sense the site characterization for identification of contaminated as well as clear areas. In preparation for such a large-scale survey, JPL has been developing advanced algorithms and a high-performance restbed for processing of massive amount of expected SAR data from this site. Two key requirements of this project are the accuracy (in terms of UXO detection) and speed of SAR data processing. The first key feature of this testbed is a large degree of automation and a minimum degree of the need for human perception in the processing to achieve an acceptable processing rate of several hundred acres per day. For accurate UXO detection, novel algorithms have been developed and implemented. These algorithms analyze dual polarized (HH and VV) SAR data. They are based on the correlation of HH and VV SAR data and involve a rather large set of parameters for accurate detection of UXO. For each specific site, this set of parameters can be optimized by using ground truth data (i.e., known surface and subsurface UXOs). In this paper, we discuss these algorithms and their successful application for detection of surface and subsurface anti-tank mines by using a data set from Yuma proving Ground, A7, acquired by SRI SAR.

Fijany, Amir↗

NASA NTRS1993

Analysis and Simulation for a Spotlight-Mode Aircraft SAR in Circular Flight Path

A wide azimuth beam SAR can offer higher resolution or wider azimuth viewing angle; two factors that help better characterize the backscattering property of targets for various science applications. One disadvantage of wide beam SAR is that a much higher pulse repetition frequency (PRF) is usually required since PRF is proportional to the radar beam angle. This problem can be resolved using a spotlight-mode concept: steering a narrow beam SAR to a fixed spot on the ground. The drawback of a spotlight-mode SAR is its limited coverage. A conventional spotlight-mode SAR operates along a straight line path as shown in Figure 1. It can be shown that spotlight-mode SAR that follows a straight line path has difficulty in achieving the ultimate resolution of lambda/4. It also cannot utilize the full 180 degree of azimuth viewing angle that can be attained only when the synthetic aperture length approaches infinity.

Jin, Michael Y.↗

NASA NTRS2007

Titan's Surface from Cassini RADAR SAR and High Resolution Radiometry Data of the First Five Flybys

The first five Titan flybys with Cassini's Synthetic Aperture RADAR (SAR) and radiometer are examined with emphasis on the calibration and interpretation of the high-resolution radiometry data acquired during the SAR mode (SAR-radiometry). Maps of the 2-cm wavelength brightness temperature are obtained coincident with the SAR swath imaging, with spatial resolution approaching 6 km. A preliminary calibration shows that brightness temperature in these maps varies from 64 to 89 K. Surface features and physical properties derived from the SAR-radiometry maps and SAR imaging are strongly correlated; in general, we find that surface features with high radar reflectivity are associated with radiometrically cold regions, while surface features with low radar reflectivity correlate with radiometrically warm regions. We examined scatterplots of the normalized radar cross-section sigma(exp o) versus brightness temperature, finding differing signatures that characterize various terrains and surface features. Implications for the physical and compositional properties of these features are discussed. The results indicate that volume scattering is important in many areas of Titan's surface, particularly Xanadu, while other areas exhibit complex brightness temperature variations consistent with variable slopes or surface material and compositional properties.

Titan↗

DOE OSTI2021

Neutralizing Antibodies to SARS-CoV-2 Selected from a Human Antibody Library Constructed Decades Ago

Combinatorial antibody libraries not only effectively reduce antibody discovery to a numbers game, but enable documentation of the history of antibody responses in an individual. The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic has prompted a wider application of this technology to meet the public health challenge of pandemic threats in the modern era. Herein, a combinatorial human antibody library constructed 20 years before the coronavirus disease 2019 (COVID-19) pandemic is used to discover three highly potent antibodies that selectively bind SARS-CoV-2 spike protein and neutralize authentic SARS-CoV-2 virus. Compared to neutralizing antibodies from COVID-19 patients with generally low somatic hypermutation (SHM), these three antibodies contain over 13–22 SHMs, many of which are involved in specific interactions in their crystal structures with SARS-CoV-2 spike receptor binding domain. The identification of these somatically mutated antibodies in a pre-pandemic library raises intriguing questions about the origin and evolution of these antibodies with respect to their reactivity with SARS-CoV-2.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2021

Development of a rapid viability RT-PCR (RV-RT-PCR) method to detect infectious SARS-CoV-2 from swabs

Since the rapid onset of the COVID-19 pandemic, its causative virus, Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2), continues to spread and increase the number of fatalities. To expedite studies on understanding potential surface transmission of the virus and to aid environmental epidemiological investigations, here we developed a rapid viability reverse transcriptase PCR (RV-RT-PCR) method that detects viable (infectious) SARS-CoV-2 from swab samples in <1 day compared to several days required by current gold-standard cell-culture-based methods. The method integrates cell-culture-based viral enrichment in a 96-well plate format with gene-specific RT-PCR-based analysis before and after sample incubation to determine the cycle threshold (C T ) difference (ΔC T ). An algorithm based on ΔC T ≥ 6 representing ~ 2-log or more increase in SARS-CoV-2 RNA following enrichment determines the presence of infectious virus. The RV-RT-PCR method with 2-hr viral infection and 9-hr post-infection incubation periods includes ultrafiltration to concentrate virions, resulting in detection of <50 SARS-CoV-2 virions in swab samples in 17 h (for a batch of 12 swabs), compared to days typically required by the cell-culture-based method. The SARS-CoV-2 RV-RT-PCR method may also be useful in clinical sample analysis and antiviral drug testing, and could serve as a model for developing rapid methods for other viruses of concern.

60 APPLIED LIFE SCIENCES↗