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The algorithms and implementation of an integrated SAR processor designed to process multi-frequency SAR data from either polarimetric, interferometric or mixed mode (a combination of polarimetric and interferometric modes) SAR systems is described.
A design constraint traceable to the early days of spaceborne Synthetic Aperture Radar (SAR) is known as the minimum antenna area constraint for SAR. It specifies, as the name suggests, a minimum area for SAR antennas, to optimize performance.
A spacecraft-to-spacecraft optical time-transfer simulation has been developed as a tool for informing NASA’s Surface Deformation and Change (SDC) mission architecture. The SDC mission will combine radar images from multiple spacecraft to improve understanding of the Earth’s sea-level and landscape changes. Spacecraft must be precisely synchronized in order to create sharp radar images. Simulation of multiple spacecraft time-synchronizing via laser communication can inform technology choices of a mission by providing a picosecond-precision level estimate of clock error. This timing and ranging simulation has been combined with a radar system performance analysis pipeline. The simulated timing errors are used to predict performance of bistatic SAR systems in the presence of oscillator noise and time synchronization in accuracy. This analysis includes both analytic approximation equations from existing literature, and a numerical radar simulation to extract key system performance parameters like phase error and signal-to-noise ratio (SNR)degradation. Precision time-transfer techniques facilitate the accurate synchronization of clocks between any combination of terminals. Most time-transfer technology for comparing two clocks at different terminals use radio frequencies (RF) to measure the time delay between the sending and receiving of signals. Laser technology offers the capability to transmit high data rates with systems that are of smaller size and lower power than comparable RF systems. The clocks on independent spacecraft will have some phase and frequency errors between them that result in clock drift. The two clock models that are included in this bi-directional MATLAB simulation are a cesium-based Chip-Scale Atomic Clock (CSAC) and a rubidium-based Miniature Atomic Clock (MAC). The CSAC has flown as hardware for small satellite missions such as the University of Florida’s CHOMPTT mission. A study of example orbits, including that of NASA NASA-ISRO Synthetic Aperture Radar Mission (NISAR) mission, and lasing rates demonstrate the impact of flight configuration parameters on the synchronization error between two spacecraft. The MATLAB timing simulation uses a Runge-Kutta 4th-order method to propagate spacecraft orbits and computes the light-travel time estimate between them. The simulation outputs the estimated range and estimated clock error based on a user-defined spacecraft cluster configuration. The radar simulation and analytic approximations are applied to evaluate a potential future NASA bistatic SAR constellation architecture. In the proposed architecture, satellites follow each other in the same orbit at 800 km altitude, with a 210 km baseline. We also baseline the CSAC as an ultra stable oscillator, and use NASA’s NISAR for baseline radar system parameters to compute a clock-system introduced phase error of 5.6 degrees without synchronization by frequent time transfer. We build on this base case with a sensitivity analysis of radar performance over a proposed range of constellation and radar system parameters. With this analysis pipeline, we comment on which radar parameters should or should not be changed to minimize synchronization requirements. This analysis technique could be extended or modified to evaluate the timing requirements of other geometries for other future multistatic SAR missions, or other interferometric satellite missions.
Forest stand height (FSH), or average canopy height, serves as an important indicator for forest monitoring. The information provided about above ground biomass for greenhouse gas emissions reporting, and estimating carbon storage is relevant for reporting for Reducing Emissions from Deforestation and Forest Degradation (REDD+). A novel forest height estimation method utilizing a fusion of backscatter and Interferometric Synthetic Aperture Radar (InSAR) data from JAXA’s Advanced Land Observing Satellite Phased Array type L-band Synthetic Aperture Radar (ALOS PALSAR) are applied to a use case in Savannakhet, Lao. Compared with LiDAR, the estimated height from the fusion method had an RMSE of 4.90 m and an R2 of 0.26. These results are comparable to previous studies using SAR estimation techniques. Despite limitations of data quality and quantity, the Savannakhet, Lao use case demonstrates the applicability of these techniques utilizing L-band SAR data for estimating FSH in tropical forests and can be used as a springboard for use of L-band data from the future NASA-ISRO SAR (NISAR) mission.
It is necessary to calibrate SAR data in order to use the data for science applications. When both polarimetric and interferometric data are collected simultaneously, these SAR data can be used for cross-calibration and verification.
Nirmatrelvir (NMV) is a SARS‐CoV‐2 antiviral component of the approved COVID‐19 therapeutic Paxlovid. It is a reversible covalent inhibitor of SARS‐CoV‐2 main protease (M Pro ) that is effluxed from human cells by P‐glycoprotein (P‐gp). To identify NMV analogs with improved potency and reduced P‐gp efflux, a structure–activity relationship campaign was conducted. Warheads alternative to nitrile for engaging the active site cysteine were tested showing aldehyde and dichloroacetamide with better enzyme inhibition potency. Crystal structure of MPI‐136−M Pro shows its aldehyde warhead forming a thiohemiacetal with active Cys145 of M Pro . Several S4 binders were explored revealing that an O‐to‐S shift at the N ‐terminal amide leads to better enzyme inhibition. By exploring different combinations of S2, S3, and S4 binders, two inhibitors with better enzyme inhibition potency than NMV were found. Crystal structure of MPI‐148, with ( S )‐2‐azaspiro[4,5]decane‐3‐carboxylate as an alternative S2 binder, shows extensive hydrogen‐bond networks for locking the inhibitor in active site, explaining high affinity of NMV analogs. Further characterization of cellular M Pro engagement and antiviral potency against SARS‐CoV‐2 revealed four inhibitors with greater potency than NMV in P‐gp‐expressing cells. Studies with the P‐gp inhibitor CP‐100356 showed that these compounds were less sensitive to P‐gp inhibition than NMV, consistent with reduced P‐gp‐mediated efflux.
SARS-CoV-2 3CL protease (Main protease) and human cathepsin L are proteases that play unique roles in the infection of human cells by SARS-CoV-2, the causative agent of COVID-19. Both proteases recognize leucine and other hydrophobic amino acids at the P 2 position of a peptidomimetic inhibitor. At the P 1 position, cathepsin L accepts many amino acid side chains, with a partial preference for phenylalanine, while 3CL-PR protease has a stringent specificity for glutamine or glutamine analogues. We have designed, synthesized, and evaluated peptidomimetic aldehyde dual-target (dual-acting) inhibitors using two peptide scaffolds based on those of two Pfizer 3CL-PR inhibitors, Nirmatrelvir, and PF-835321. Our inhibitors contain glutamine isosteres at the P 1 position, including 2-pyridon-3-yl-alanine, 3-pyridinyl-alanine, and 1,3-oxazo-4-yl-alanine groups. Inhibition constants for these new inhibitors ranged from K i = 0.6–18 nM (cathepsin L) and K i = 2.6–124 nM (3CL-PR), for which inhibitors with the 2-pyridon-3-yl-alanal substituent were the most potent for 3CL-PR. The anti-CoV-2 activity of these inhibitors ranged from EC 50 = 0.47–15 μM. X-ray structures of the peptidomimetic aldehyde inhibitors of 3CL-PR with similar scaffolds all demonstrated the formation of thiohemiacetals with Cys 145 , and hydrogen-bonding interactions with the heteroatoms of the pyridon-3-yl-alanyl group, as well as the nitrogen of the N-terminal indole and its appended carbonyl group at the P 3 position. The absence of these hydrogen bonds for the inhibitors containing the 3-pyridinyl-alanyl and 1,3-oxazo-4-yl-alanyl groups was reflected in the less potent inhibition of the inhibitors with 3CL-PR. In summary, our studies demonstrate the value of a second generation of cysteine protease inhibitors that comprise a single agent that acts on both human cathepsin L and SARS-CoV-2 3CL protease. Such dual-target inhibitors will provide anti-COVID-19 drugs that remain active despite the development of resistance due to mutation of the viral protease. Such dual-target inhibitors are more likely to remain useful therapeutics despite the emergence of inactivating mutations in the viral protease because the human cathepsin L will not develop resistance. This particular dual-target approach is innovative since one of the targets is viral (3CL-PR) required for viral protein maturation and the other is human (hCatL) which enables viral infection.
Abstract SARS-CoV-2 nucleocapsid (N) protein is a structural component of the virus with essential roles in the replication and packaging of the viral RNA genome. The N protein is also an important target of COVID-19 antigen tests and a promising vaccine candidate along with the spike protein. Here, we report a compact stem-loop DNA aptamer that binds tightly to the N-terminal RNA-binding domain of SARS-CoV-2 N protein. Crystallographic analysis shows that a hexanucleotide DNA motif (5′-TCGGAT-3′) of the aptamer fits into a positively charged concave surface of N-NTD and engages essential RNA-binding residues including Tyr109, which mediates a sequence-specific interaction in a uracil-binding pocket. Avid binding of the DNA aptamer allows isolation and sensitive detection of full-length N protein from crude cell lysates, demonstrating its selectivity and utility in biochemical applications. We further designed a chemically modified DNA aptamer and used it as a probe to examine the interaction of N-NTD with various RNA motifs, which revealed a strong preference for uridine-rich sequences. Our studies provide a high-affinity chemical probe for the SARS-CoV-2 N protein RNA-binding domain, which may be useful for diagnostic applications and investigating novel antiviral agents.
Most previously authorized clinical antibodies against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) have lost neutralizing activity to recent variants due to rapid viral evolution. To mitigate such escape, we preemptively enhance AZD3152, an antibody authorized for prophylaxis in immunocompromised individuals. Using deep mutational scanning (DMS) on the SARS-CoV-2 antigen, we identify AZD3152 vulnerabilities at antigen positions F456 and D420. Through two iterations of computational antibody design that integrates structure-based modeling, machine-learning, and experimental validation, we co-optimize AZD3152 against 24 contemporary and previous SARS-CoV-2 variants, as well as 20 potential future escape variants. Our top candidate, 3152-1142, restores full potency (100-fold improvement) against the more recently emerged XBB.1.5+F456L variant that escaped AZD3152, maintains potency against previous variants of concern, and shows no additional vulnerability as assessed by DMS. This preemptive mitigation demonstrates a generalizable approach for optimizing existing antibodies against potential future viral escape.
The evolution of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) requires ongoing monitoring to judge the ability of newly arising variants to escape the immune response. A surveillance system necessitates an understanding of differences in neutralization titers measured in different assays and using human and animal serum samples. We compared 18 datasets generated using human, hamster, and mouse serum and six different neutralization assays. Datasets using animal model serum samples showed higher titer magnitudes than datasets using human serum samples in this comparison. Fold change in neutralization of variants compared to ancestral SARS-CoV-2, immunodominance patterns, and antigenic maps were similar among serum samples and assays. Most assays yielded consistent results, except for differences in fold change in cytopathic effect assays. Hamster serum samples were a consistent surrogate for human first-infection serum samples. These results inform the transition of surveillance of SARS-CoV-2 antigenic variation from dependence on human first-infection serum samples to the utilization of serum samples from animal models.
Wastewater testing can be used to monitor SARS-CoV-2 infections in communities. Data from PCR-based wastewater testing are usually available to public health authorities within 5–7 days after excreta and other body fluids enter the sewer. While PCR-based methods can accurately detect and quantify SARS-CoV-2, sequencing-based methods are usually required to distinguish between variants, delaying the results and adding cost to the process. We developed and assessed a novel, customizable digital PCR (dPCR)-based genotyping method for SARS-CoV-2 variant detection in wastewater, which is more cost-effective, faster, and more accessible than sequencing. This approach was applied to more than 1,400 wastewater samples
Calibration of SAR antennas requires a measurement of gain, elevation and azimuth pattern shape, boresight error, cross-polarization levels, and phase vs. angle and frequency. For spaceborne SAR antennas of SEASAT size operating at C-band or higher, some of these measurements can become extremely difficult using conventional far-field antenna test ranges. Near-field scanning techniques offer an alternative approach and for C-band or X-band SARs, give much improved accuracy and precision as compared to that obtainable with a far-field approach.
The potential use of real-time synthetic aperture radar (SAR) processing to produce 200 meter resolution imagery onboard a 1983 Venus orbiter imaging radar spacecraft is described. The VOIR SAR processing requirements are defined in terms of a nominal baseline design evolving from a 1977 VOIR mission study. A candidate onboard SAR processor architecture compatible with the VOIR requirements is next detailed. Finally, implementation characteristics, based upon currently available integrated circuits, are estimated in terms of chip count, power, and weight.
The experiment was performed using the Environmental Research Institute of Michigan's (ERIM) dual-frequency and dual-polarization side-looking SAR system on board a C-46 aircraft. For each frequency, horizontally polarized pulses were transmitted and both horizontally and vertically polarized return signals were recorded on the signal film simultaneously. The test sites were located in St. Charles, Missouri; Centralia, Missouri; and Lafayette, Indiana. Each test site was a 4.83 km by 8.05 km (3 mile by 5 mile) rectangular strip of terrain. Concurrent with SAR overflight, ground soil samples of 0-to-2.5 cm and 0-to-15 cm layers were collected for soil moisture estimation. The surface features were also noted. Hard-copy image films and the digital data produced via optical processing of the signal films are analyzed in this report to study the relationship of radar backscatter to the moisture content and the surface roughness. Many difficulties associated with processing and analysis of the SAR imagery are noted. In particular, major uncertainty in the quantitative analysis appeared due to the difficulty of quality reproduction of digital data from the signal films.
A segmented linear approximation of the quadratic phase function that is used to focus the synthetic antenna of a SAR was studied. Ideal focusing, using a quadratic varying phase focusing function during the time radar target histories are gathered, requires a large number of complex multiplications. These can be largely eliminated by using linear approximation techniques. The result is a reduced processor size and chip count relative to ideally focussed processing and a correspondingly increased feasibility for spaceworthy implementation. A preliminary design and sizing for a spaceworthy linear approximation SAR azimuth processor meeting requirements similar to those of the SEASAT-A SAR was developed. The study resulted in a design with approximately 1500 IC's, 1.2 cubic feet of volume, and 350 watts of power for a single look, 4000 range cell azimuth processor with 25 meters resolution.
An unusual SAR arc observed during the growth phase of the ring current is described. Proton precipitation was observed, with electron temperature enhancements throughout the region, and an F-region trough present at the equatorward boundary; a high flux of low energy at the SAR arc location and a 'slot' in the ambient electron density are characteristic of this event. Comparisons are made with S3-A spacecraft observations made in the equatorial region at the same time and with Isis-II observations of a more normal SAR arc; the kinetic Alfven process described by Hasegawa and Mima (1978) appears to account for the acceleration of these low energy electrons, although an auroral-type acceleration process cannot be excluded.
Simultaneous directional wave measurements were made at Torrey Pines Beach, California, by a synthetic aperture radar (SAR) and a linear array of pressure sensors. The measurements were conducted during the West Coast Experiment in March 1977. Quantitative comparisons of the normalized directional spectra from the two systems were made for wave periods of 6.9-17.0 s. The comparison results were variable but generally showed good agreement of the primary mode of the normalized directional energy. An attempt was made to quantify the physical criteria for good wave imaging in the SAR. A frequency band analysis of wave parameters such as band energy, slope, and orbital velocity did not show good correlation with the directional comparisons. It is noted that absolute values of the wave height spectrum cannot be derived from the SAR images yet and, consequently, no comparisons of absolute energy levels with corresponding array measurements were intended.
Applications of Synthetic Aperture Radar (SAR) technology to the observation of coastal zones phenomena are detailed. The conditions observed include gravity wave detection, surf zone location, surface currents, and long-period 'surf beats'. Algorithms have been developed and successfully tested that determine significant wave and current parameters from the sea surface backscatter of microwave energy. Doppler information from the SAR optical correlator allows a rough estimation of near shore surface flow velocities that has been found in agreement with both theory and in situ observations as well. Seasat SAR data of the Scotland and North Carolina coasts are considered, as well as the results of bathymetric updating of coastal area charts.