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The surface morphology, electrical properties, and related processes of Venus are the major areas of investigation of the Magellan Mission. The spacecraft employs a SAR for imaging, altimetry, and radiometry, and the mapping of 83 percent of the surface was complete after one of Venus' sidereal days. The strips of image data can provide a global map of Venus to permit the determination of such geologic features as volcanic and tectonic patterns.
Orf8, one of the most puzzling genes in the SARS lineage of coronaviruses, marks a unique and striking difference in genome organization between SARS-CoV-2 and SARS-CoV-1. Here, using sequence comparisons, we unequivocally reveal the distant sequence similarities between SARS-CoV-2 Orf8 with its SARS-CoV-1 counterparts and the X4-like genes of coronaviruses, including its highly divergent “paralog” gene Orf7a, whose product is a potential immune antagonist of known structure. Supervised sequence space walks unravel identity levels that drop below 10% and yet exhibit subtle conservation patterns in this novel superfamily, characterized by an immunoglobulin-like beta sandwich topology. We document the high accuracy of the sequence space walk process in detail and characterize the subgroups of the superfamily in sequence space by systematic annotation of gene and taxon groups. While SARS-CoV-1 Orf7a and Orf8 genes are most similar to bat virus sequences, their SARS-CoV-2 counterparts are closer to pangolin virus homologs, reflecting the fine structure of conservation patterns within the SARS-CoV-2 genomes. The divergence between Orf7a and Orf8 is exceptionally idiosyncratic, since Orf7a is more constrained, whereas Orf8 is subject to rampant change, a peculiar feature that may be related to hitherto-unknown viral infection strategies. Despite their common origin, the Orf7a and Orf8 protein families exhibit different modes of evolutionary trajectories within the coronavirus lineage, which might be partly attributable to their complex interactions with the mammalian host cell, reflected by a multitude of functional associations of Orf8 in SARS-CoV-2 compared to a very small number of interactions discovered for Orf7a.
We present the first synthetic aperture radar (SAR) offshore wind atlas of the US East Coast from Georgia to the Canadian border. Images from RADARSAT-1, Envisat, and Sentinel-1A/B are processed to wind maps using the geophysical model function (GMF) CMOD5.N. Extensive comparisons with 6008 collocated buoy observations of the wind speed reveal that biases of the individual systems range from -0.8 to 0.6 m s -1 . Unbiased wind retrievals are crucial for producing an accurate wind atlas, and intercalibration of the SAR observations is therefore applied. Wind retrievals from the intercalibrated SAR observations show biases in the range of to -0.2 to 0.0 m s -1 , while at the same time improving the root-mean-squared error from 1.67 to 1.46 m s -1 . The intercalibrated SAR observations are, for the first time, aggregated to create a wind atlas at the height 10 m a.s.l. (above sea level). The SAR wind atlas is used as a reference to study wind resources derived from the Wind Integration National Dataset Toolkit (WTK), which is based on 7 years of modelling output from the Weather Research and Forecasting (WRF) model. Comparisons focus on the spatial variation in wind resources and show that model outputs lead to lower coastal wind speed gradients than those derived from SAR. Areas designated for offshore wind development by the Bureau of Ocean Energy Management are investigated in more detail; the wind resources in terms of the mean wind speed show spatial variations within each designated area between 0.3 and 0.5 m s -1 for SAR and less than 0.2m s -1 for the WTK. Our findings indicate that wind speed gradients and variations might be underestimated in mesoscale model outputs along the US East Coast.
This paper discusses scatterometer measurements collected with multi-mode Digital Beamforming Synthetic Aperture Radar (DBSAR) during the SMAP-VEX 2008 campaign. The 2008 SMAP Validation Experiment was conducted to address a number of specific questions related to the soil moisture retrieval algorithms. SMAP-VEX 2008 consisted on a series of aircraft-based.flights conducted on the Eastern Shore of Maryland and Delaware in the fall of 2008. Several other instruments participated in the campaign including the Passive Active L-Band System (PALS), the Marshall Airborne Polarimetric Imaging Radiometer (MAPIR), and the Global Positioning System Reflectometer (GPSR). This campaign was the first SMAP Validation Experiment. DBSAR is a multimode radar system developed at NASA/Goddard Space Flight Center that combines state-of-the-art radar technologies, on-board processing, and advances in signal processing techniques in order to enable new remote sensing capabilities applicable to Earth science and planetary applications [l]. The instrument can be configured to operate in scatterometer, Synthetic Aperture Radar (SAR), or altimeter mode. The system builds upon the L-band Imaging Scatterometer (LIS) developed as part of the RadSTAR program. The radar is a phased array system designed to fly on the NASA P3 aircraft. The instrument consists of a programmable waveform generator, eight transmit/receive (T/R) channels, a microstrip antenna, and a reconfigurable data acquisition and processor system. Each transmit channel incorporates a digital attenuator, and digital phase shifter that enables amplitude and phase modulation on transmit. The attenuators, phase shifters, and calibration switches are digitally controlled by the radar control card (RCC) on a pulse by pulse basis. The antenna is a corporate fed microstrip patch-array centered at 1.26 GHz with a 20 MHz bandwidth. Although only one feed is used with the present configuration, a provision was made for separate corporate feeds for vertical and horizontal polarization. System upgrades to dual polarization are currently under way. The DBSAR processor is a reconfigurable data acquisition and processor system capable of real-time, high-speed data processing. DBSAR uses an FPGA-based architecture to implement digitally down-conversion, in-phase and quadrature (I/Q) demodulation, and subsequent radar specific algorithms. The core of the processor board consists of an analog-to-digital (AID) section, three Altera Stratix field programmable gate arrays (FPGAs), an ARM microcontroller, several memory devices, and an Ethernet interface. The processor also interfaces with a navigation board consisting of a GPS and a MEMS gyro. The processor has been configured to operate in scatterometer, Synthetic Aperture Radar (SAR), and altimeter modes. All the modes are based on digital beamforming which is a digital process that generates the far-field beam patterns at various scan angles from voltages sampled in the antenna array. This technique allows steering the received beam and controlling its beam-width and side-lobe. Several beamforming techniques can be implemented each characterized by unique strengths and weaknesses, and each applicable to different measurement scenarios. In Scatterometer mode, the radar is capable to.generate a wide beam or scan a narrow beam on transmit, and to steer the received beam on processing while controlling its beamwidth and side-lobe level. Table I lists some important radar characteristics
Missing samples within synthetic aperture radar data result in image distortions. For coherent data products, such as coherent change detection and interferometric processing, the image distortion can be devastating to these second order products, resulting in missed detections and inaccurate height maps. Earlier approaches to repair the coherent data products focus upon reconstructing the missing data samples. This study demonstrates that reconstruction is not necessary to restore the quality of the coherent data products.
The entry of the SARS-CoV-2, a causative agent of COVID-19, into human host cells is mediated by the SARS-CoV-2 spike (S) glycoprotein, which critically depends on the formation of complexes involving the spike protein receptor-binding domain (RBD) and the human cellular membrane receptor angiotensin-converting enzyme 2 (hACE2). Using classical site density functional theory (SDFT) and structural bioinformatics methods, we investigate binding and conformational properties of these complexes and study the overlooked role of water-mediated interactions. Analysis of the three-dimensional reference interaction site model (3DRISM) of SDFT indicates that water mediated interactions in the form of additional water bridges strongly increases the binding between SARS-CoV-2 spike protein and hACE2 compared to SARS-CoV-1-hACE2 complex. By analyzing structures of SARS-CoV-2 and SARS-CoV-1, we find that the homotrimer SARS-CoV-2 S receptor-binding domain (RBD) has expanded in size, indicating large conformational change relative to SARS-CoV-1 S protein. Protomer with the up-conformational form of RBD, which binds with hACE2, exhibits stronger intermolecular interactions at the RBD-ACE2 interface, with differential distributions and the inclusion of specific H-bonds in the CoV-2 complex. Further interface analysis has shown that interfacial water promotes and stabilizes the formation of CoV-2/hACE2 complex. This interaction causes a significant structural rigidification of the spike protein, favoring proteolytic processing of the S protein for the fusion of the viral and cellular membrane. Moreover, conformational dynamics simulations of RBD motions in SARS-CoV-2 and SARS-CoV-1 point to the role in modification of the RBD dynamics and their impact on infectivity.
Circadian rhythms, the 24-hour cycles that tune organismal physiology to the daily rhythms of light and dark, optimally organize cellular processes such as metabolism and mitochondrial function. In mammals, macrophage functions are regulated by these 24-hour circadian rhythms such that the immunometabolic response is coordinated across the day, consolidating macrophage physiology into temporally distinct phases to time the cellular immune response. However, while it is known that there are time-of-day specific responses to stress in a macrophage, little has been done to determine if circadian regulation coordinates the response of a macrophage to real-world pathogens. Importantly, key proteins in the response to viral infection have been found to be under circadian control, and time of day of application is known to affect the efficacy of vaccinations, including in the case of the COVID-19 virus. Therefore, to investigate if the circadian regulation of macrophage physiology imparted a time-of-day response to viral exposure, we exposed primary mouse and human macrophages to the SARS-CoV-1 and CoV-2 spike proteins at different times over the circadian day. To establish a time-of-day effect, we performed a multi-omics analysis and in vitro tissue culture assays examining macrophage responses over circadian time. We found that, conserved across the species, the timing of spike protein exposure dictated two distinct temporal responses which were characterized by hallmarks of immunometabolic suppression and modest inflammatory activation. However, these responses were primarily influenced by central metabolic and mitochondrial changes and not by classical immune activation.
Data from the Sentinel-1 satellite have already proven useful for investigating seismic and volcanic events since its launch in April 2014. The requirement of ultrahigh coregistration accuracy and the current relatively short time of Sentinel-1 acquisitions make its application challenging for studying slow deformation processes, such as fault creep and land subsidence. Here in this paper we analyze a set of 14 SAR images over the San Francisco Bay Area spanning 1 year from early 2015 to 2016. We show that implementing an existing Enhanced Spectral Diversity algorithm or using precise orbits together with a reference digital elevation model both yield the required coregistration accuracy for making use of the phase measurements in time series analysis of ground deformation. Following a thorough validation test, we update our estimates of Hayward Fault creep rate and confirm uplift due to recharge of the Santa Clara Valley aquifer system during the final summer of 4 year drought.
Potential research applications of satellite data over the terrestrial ice sheets of Greenland and Antarctica are assessed and actions required to ensure acquisition of relevant data and appropriate processing to a form suitable for research purposes are recommended. Relevant data include high-resolution visible and SAR imagery, infrared, passive-microwave and scatterometer measurements, and surface topography information from laser and radar altimeters.
A mathematical model of transient seas modulated by coherent swells is developed as a Rayleigh-Poisson random process subject to deterministic correlations of scattering sites, as they appear in a time window defined by a SAR's range-Doppler measurements of the surface coordinates. This model of SAR response to sea surface dynamics is discussed as a Fourier domain predictor/corrector of a dynamic motion blur.
Severe acute respiratory syndrome coronavirus (SARS-CoV) and Middle East respiratory syndrome coronavirus (MERS-CoV) encode multifunctional papain-like proteases (PLPs) that have the ability to process the viral polyprotein to facilitate RNA replication and antagonize the host innate immune response. The latter function involves reversing the post-translational modification of cellular proteins conjugated with either ubiquitin (Ub) or Ub-like interferon-stimulated gene product 15 (ISG15). Ub is known to be highly conserved among eukaryotes, but surprisingly, ISG15 is highly divergent among animals. The ramifications of this sequence divergence to the recognition of ISG15 by coronavirus PLPs at a structural and biochemical level are poorly understood. Therefore, the activity of PLPs from SARS-CoV, MERS–CoV, and mouse hepatitis virus was evaluated against seven ISG15s originating from an assortment of animal species susceptible, and not, to certain coronavirus infections. Excitingly, our kinetic, thermodynamic, and structural analysis revealed an array of different preferences among PLPs. Included in these studies is the first insight into a coronavirus PLP’s interface with ISG15 via SARS-CoV PLpro in complex with the principle binding domain of human ISG15 (hISG15) and mouse ISG15s (mISG15s). Here, the first X-ray structure of the full-length mISG15 protein is also reported and highlights a unique, twisted hinge region of ISG15 that is not conserved in hISG15, suggesting a potential role in differential recognition. Taken together, this new information provides a structural and biochemical understanding of the distinct specificities among coronavirus PLPs observed and addresses a critical gap of how PLPs can interact with ISG15s from a wide variety of species.
This paper reports some interim results relating to an on-going effort to develop an electronic processor for real-time processing of synthetic aperture radar data. An experimental laboratory processor is being developed as a testbed for design of onboard processors for future space missions. This paper describes the configuration of the experimental processor and discusses technical factors pertaining to the design.
ABSTRACT Wastewater surveillance has emerged as a crucial public health tool for population-level pathogen surveillance. Supported by funding from the American Rescue Plan Act of 2021, the FDA‘s genomic epidemiology program, GenomeTrakr, was leveraged to sequence SARS-CoV-2 from wastewater sites across the United States. This initiative required the evaluation, optimization, development, and publication of new methods and analytical tools spanning sample collection through variant analyses. Version-controlled protocols for each step of the process were developed and published on protocols.io. A custom data analysis tool and a publicly accessible dashboard were built to facilitate real-time visualization of the collected data, focusing on the relative abundance of SARS-CoV-2 variants and sub-lineages across different samples and sites throughout the project. From September 2021 through June 2023, a total of 3,389 wastewater samples were collected, with 2,517 undergoing sequencing and submission to NCBI under the umbrella BioProject,PRJNA757291. Sequence data were released with explicit quality control (QC) tags on all sequence records, communicating our confidence in the quality of data. Variant analysis revealed wide circulation of Delta in the fall of 2021 and captured the sweep of Omicron and subsequent diversification of this lineage through the end of the sampling period. This project successfully achieved two important goals for the FDA’s GenomeTrakr program: first, contributing timely genomic data for the SARS-CoV-2 pandemic response, and second, establishing both capacity and best practices for culture-independent, population-level environmental surveillance for other pathogens of interest to the FDA. IMPORTANCE This paper serves two primary objectives. First, it summarizes the genomic and contextual data collected during a Covid-19 pandemic response project, which utilized the FDA’s laboratory network, traditionally employed for sequencing foodborne pathogens, for sequencing SARS-CoV-2 from wastewater samples. Second, it outlines best practices for gathering and organizing population-level next generation sequencing (NGS) data collected for culture-free, surveillance of pathogens sourced from environmental samples.
Radar coherence is an important concept for imaging radar systems such as synthetic aperture radar (SAR). This document quantifies some of the effects in SAR which modify the coherence. Although these effects can disrupt the coherence within a single SAR image, this report will focus on the coherence between separate images, such as for coherent change detection (CCD) processing. There have been other presentations on aspects of this material in the past. The intent of this report is to bring various issues that affect the coherence together in a single report to support radar engineers in making decisions about these matters.
Produces real-time, single-look, high-resolution imagery. Digital synthetic-aperature-radar (SAR) processor achieves rate of 4 million samples per second. System combines frequency-domain and time-domain processing for two-dimensional azimuth correlation.
The operating principles of an acoustooptic/CCD real-time SAR processor are described, and experimental results are presented. Particular consideration is given to time-and-space integrating processing, the range processor, and the azimuth processor. The interferometric detection scheme is examined in detail.
Contents include the following: Impact Metamorphism of Subsurface Organic Matter on Mars: A Potential Source for Methane and Surface Alteration. Preliminary Study of Polygonal Impact Craters in Argyre Region, Mars. Geochemistry of the Dark Veinlets in the Granitoids from the Souderfjarden Impact Structure, Finland: Preliminary Results. An Experimental Method to Estimate the Chemical Reaction Rate in Vapor Clouds: An Application to the K/T Impact. Study of the Apollo 16 Landing Site: Re-Visit as a Standard Site for the SELENE Multiband Imager. First X-Ray Observation of Lunar Farside from Hayabusa X-Ray Spectrometer. Lunar X-Ray Fluorescence Spectrometry from SELENE Lunar Polar Orbiter. Origin and Thermal History of Lithic Materials in the Begaa LL3 Chondrite. Evidence of Normal Faulting and Dike Intrusion at Valles Marineris from Pit Crater Topography. Evidence of Tharsis-Radial Dike Intrusion in Southeast Alba Patera from MOLA-based Topography of Pit Crater Chains. Are They Really Intact? Evaluation of Captured Micrometeoroid Analogs by Aerogel at the Flyby Speed of Stardust. Numerical Simulations of Impactor Penetration into Ice-Over-Water Targets. A Probable Fluid Lava Flow in the Hebes Mensa (Mars) Studied by HRSC Images. New Drill-Core Data from the Lockne Crater, Sweden: The Marine Excavation and Ejection Processes, and Post-Impact Environment. Cross-Sectional Profile of Baltis Vallis Channel on Venus: Reconstruction from Magellan SAR Brightness Data.
We experimentally isolate, characterize, and coherently control up to six individual nuclear spins that are weakly coupled to an electron spin in diamond. Our method employs multipulse sequences on the electron spin that resonantly amplify the interaction with a selected nuclear spin and at the same time dynamically suppress decoherence caused by the rest of the spin bath. We are able to address nuclear spins with interaction strengths that are an order of magnitude smaller than the electron spin dephasing rate. Our results provide a route towards tomography with single-nuclear-spin sensitivity and greatly extend the number of available quantum bits for quantum information processing in diamond.