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PhaseT3M: 3D imaging at 1.6 Å resolution via electron cryo-tomography with nonlinear phase retrieval

Electron cryo-tomography (cryo-ET) enables 3D imaging of complex, radiation-sensitive structures with molecular detail. However, image contrast from the interference of scattered electrons is nonlinear with atomic density and multiple scattering further complicates interpretation. These effects degrade resolution, particularly in conventional reconstruction algorithms, which assume linearity. Particle averaging can reduce such issues but is unsuitable for heterogeneous or dynamic samples ubiquitous in biology, chemistry, and materials sciences. Here, we develop a phase retrieval-based cryo-ET method, PhaseT3M. We experimentally demonstrate its application to an approximately 7 nm Co3O4 nanoparticle on an approximately 30 nm carbon substrate, achieving a maximum resolution of 1.6 Å, surpassing conventional limits using standard cryo-TEM equipment. PhaseT3M uses a multislice model for multiple scattering and Bayesian optimization for alignment and computational aberration correction, with a positivity constraint to recover ‘missing wedge’ information. Applied directly to biological particles, it enhances reconstruction quality and reduces artifacts, establishing a standard for routine 3D imaging with phase contrast.

Biophysics

Evaluation of cloud height, optical thickness, and phase retrievals from the CHROMA algorithm applied to Sentinel-3 OLCI data

We previously developed the Cloud Height Retrieval from O 2 Molecular Absorption (CHROMA) algorithm for the Ocean Color Instrument (OCI) on the new NASA Plankton, Aerosol, Cloud, ocean Ecosystem (PACE) mission. Here, we apply CHROMA to observations from the Ocean Land Colour Instrument (OLCI) to guide expectations for PACE, as it will take some time to obtain large-scale validation data for OCI. We use cloud top height (CTH), phase, and (for liquid clouds) cloud optical thickness (COT) data from the ground-based Atmospheric Radiation Measurement (ARM) network to evaluate the OLCI retrievals. We found that OLCI and Moderate Resolution Imaging Spectroradiometer (MODIS) CTH compare similarly well to the ARM reference. OLCI has a tendency to underestimate CTH as CTH increases, and algorithm assumptions about cloud geometric thickness may contribute to this. ARM COT from multifilter shadowband radiometers (MFRSR) and Sun photometers are well-correlated with one another, albeit with a roughly 30 % offset on average; OLCI and MODIS COT agree more closely with the MFRSR data. OLCI retrieval uncertainty estimates show skill at telling low-uncertainty cases from high-uncertainty ones, although CTH uncertainties are underestimated. Additionally, we compare the OLCI data to satellite retrievals based on thermal infrared measurements from MODIS and Sea and Land Surface Temperature Radiometer (SLSTR) data. Differences are broadly consistent with physical expectations based on the A-band vs. thermal techniques, although one key challenge in such aggregated comparisons is different cloud masking sensitivities and algorithm failure rates meaning additional sampling differences are introduced. We conclude by discussing the transition to and possible enhancements for PACE OCI.

Sayer, Andrew M. [Univ. of Maryland Baltimore Coun

Automated absolute phase retrieval in across-track interferometry

Discussed is a key element in the processing of topographic radar maps acquired by the NASA/JPL airborne synthetic aperture radar configured as an across-track interferometer (TOPSAR). TOPSAR utilizes a single transmit and two receive antennas; the three-dimensional target location is determined by triangulation based on a known baseline and two measured slant ranges. The slant range difference is determined very accurately from the phase difference between the signals received by the two antennas. This phase is measured modulo 2pi, whereas it is the absolute phase which relates directly to the difference in slant range. It is shown that splitting the range bandwidth into two subbands in the processor and processing each individually allows for the absolute phase. The underlying principles and system errors which must be considered are discussed, together with the implementation and results from processing data acquired during the summer of 1991.

Madsen, Soren N.

Science camera calibration for extreme adaptive optics

The nascent field of planet detection has yielded a host of extra-solar planet detections. To date, these detections have been the result of indirect techniques: the planet is inferred by precisely measuring its effect on the host star. Direct observation of extra-solar planets remains a challenging yet compelling goal. In this vein, the Center for Adaptive Optics has proposed a ground-based, high-actuator density extreme A0 system (XAOPI), for a large (~10 m) telescope whose ultimate goal is to directly evidence a specific class of these objects: young and massive planets. Detailed system wave-front error budgets suggest that this system is a feasible, if not an ambitious, proposition. One key element in this error budget is the calibration and maintenance of the science camera wave front with respect to the wave-front sensor which currently as an allowable contribution of ~ 5 nanometers rms. This talk first summarizes the current status of calibration on existing ground-based A0 systems, the magnitude of this effect in the system error budget and current techniques for mitigation. Subsequently, we will explore the nature of this calibration error term, it's source in the non-commonality between the science camera and wave front sensor, and the effect of the temporal evolution of non-commonality. Finally, we will describe preliminary plans for sensing and controlling this error term. The sensing techniques include phase retrieval, phase contrast and external metrology. To conclude, a calibration scenario that meets the stringent requirement for XAOPI will be discussed.

MacIntosh, Bruce

Hybrid diversity method utilizing adaptive diversity function for recovering unknown aberrations in an optical system

A method of recovering unknown aberrations in an optical system includes collecting intensity data produced by the optical system, generating an initial estimate of a phase of the optical system, iteratively performing a phase retrieval on the intensity data to generate a phase estimate using an initial diversity function corresponding to the intensity data, generating a phase map from the phase retrieval phase estimate, decomposing the phase map to generate a decomposition vector, generating an updated diversity function by combining the initial diversity function with the decomposition vector, generating an updated estimate of the phase of the optical system by removing the initial diversity function from the phase map. The method may further include repeating the process beginning with iteratively performing a phase retrieval on the intensity data using the updated estimate of the phase of the optical system in place of the initial estimate of the phase of the optical system, and using the updated diversity function in place of the initial diversity function, until a predetermined convergence is achieved.

Dean, Bruce H.

Variable Sampling Mapping

The performance of an optical system (for example, a telescope) is limited by the misalignments and manufacturing imperfections of the optical elements in the system. The impact of these misalignments and imperfections can be quantified by the phase variations imparted on light traveling through the system. Phase retrieval is a methodology for determining these variations. Phase retrieval uses images taken with the optical system and using a light source of known shape and characteristics. Unlike interferometric methods, which require an optical reference for comparison, and unlike Shack-Hartmann wavefront sensors that require special optical hardware at the optical system's exit pupil, phase retrieval is an in situ, image-based method for determining the phase variations of light at the system s exit pupil. Phase retrieval can be used both as an optical metrology tool (during fabrication of optical surfaces and assembly of optical systems) and as a sensor used in active, closed-loop control of an optical system, to optimize performance. One class of phase-retrieval algorithms is the iterative transform algorithm (ITA). ITAs estimate the phase variations by iteratively enforcing known constraints in the exit pupil and at the detector, determined from modeled or measured data. The Variable Sampling Mapping (VSM) technique is a new method for enforcing these constraints in ITAs. VSM is an open framework for addressing a wide range of issues that have previously been considered detrimental to high-accuracy phase retrieval, including undersampled images, broadband illumination, images taken at or near best focus, chromatic aberrations, jitter or vibration of the optical system or detector, and dead or noisy detector pixels. The VSM is a model-to-data mapping procedure. In VSM, fully sampled electric fields at multiple wavelengths are modeled inside the phase-retrieval algorithm, and then these fields are mapped to intensities on the light detector, using the properties of the detector and optical system, for comparison with measured data. Ultimately, this model-to-data mapping procedure enables a more robust and accurate way of incorporating the exit-pupil and image detector constraints, which are fundamental to the general class of ITA phase retrieval algorithms.

Smith, Jeffrey, S.

Actuated Hybrid Mirror Telescope

The figure depicts the planned Actuated Hybrid Mirror Telescope (AHMT), which is intended to demonstrate a new approach to the design and construction of wide-aperture spaceborne telescopes for astronomy and Earth science. This technology is also appropriate for Earth-based telescopes. The new approach can be broadly summarized as using advanced lightweight mirrors that can be manufactured rapidly at relatively low cost. More specifically, it is planned to use precise replicated metallic nanolaminate mirrors to obtain the required high-quality optical finishes. Lightweight, dimensionally stable silicon carbide (SiC) structures will support the nanolaminate mirrors in the required surface figures. To enable diffraction- limited telescope performance, errors in surface figures will be corrected by use of mirror-shape-control actuators that will be energized, as needed, by a wave-front-sensing and control system. The concepts of nanolaminate materials and mirrors made from nanolaminate materials were discussed in several previous NASA Tech Briefs articles. Nanolaminates constitute a relatively new class of materials that can approach theoretical limits of stiffness and strength. Nanolaminate mirrors are synthesized by magnetron sputter deposition of metallic alloys and/or compounds on optically precise master surfaces to obtain optical-quality reflector surfaces backed by thin shell structures. As an integral part of the deposition process, a layer of gold that will constitute the reflective surface layer is deposited first, eliminating the need for a subsequent and separate reflective-coating process. The crystallographic textures of the nanolaminate will be controlled to optimize the performance of the mirror. The entire deposition process for making a nanolaminate mirror takes less than 100 hours, regardless of the mirror diameter. Each nanolaminate mirror will be bonded to its lightweight SiC supporting structure. The lightweight nanolaminate mirrors and SiC supporting structures will be fabricated from reusable master molds. The mirror-shape-control actuators will be low-power, high-capacitance lead magnesium niobate electrostrictive actuators that will be embedded in the SiC structures. The mode of operation of these actuators will be such that once power was applied, they will change in length and once power was removed, they will maintain dimensional stability to nanometer precision. This mode of operation will enable the use of low-power, minimally complex electronic control circuitry. The wave-front-sensing and control system will be designed and built according to a two-stage architecture. The first stage will be implemented by a Shack- Hartmann (SH) sensor subsystem, which will provide a large capture range. The second, higher-performance stage will be implemented by an image-based wave-front-sensing subsystem that will include a phase-retrieval camera (PRC), and will utilize phase retrieval and other techniques to measure wavefront error directly. Phase retrieval is a process in which multiple images of an unresolved object are iterated to estimate the phase of the optical system that acquired the images. The combination of SH and phase-retrieval sensors will afford the virtues of both a dynamic range of 105 and an accuracy of <10 nm.

Hickey, Gregory

Columnar Aerosol Single-Scattering Albedo and Phase Function Retrieved from Sky Radiance Over the Ocean: Measurements of African Dust

The single-scattering albedo and phase function of African mineral dust are retrieved from ground-based measurements of sky radiance collected in the Florida Keys. The retrieval algorithm employs the radiative transfer equation to solve by iteration for these two properties which best reproduce the observed sky radiance using an assumed aerosol vertical structure and measured aerosol optical depth. Thus, no assumptions regarding particle size, shape, or composition are required. The single-scattering albedo, presented at fourteen wavelengths between 380 and 870 nm, displays a spectral shape expected of iron-bearing minerals but is much higher than current dust models allow. This indicates the absorption of light by mineral dust is significantly overestimated in climate studies. Uncertainty in the retrieved albedo is less than 0.02 due to the small uncertainty in the solar-reflectance-based calibration (12.2%) method employed. The phase function retrieved at 860 nm is very robust under simulations of expected experimental errors, indicating retrieved phase functions at this wavelength may be confidently used to describe aerosol scattering characteristics. The phase function retrieved at 443 nm is very sensitive to expected experimental errors and should not be used to describe aerosol scattering. Radiative forcing by aerosol is the greatest source of uncertainty in current climate models. These results will help reduce uncertainty in the absorption of light by mineral dust. Assessment of the radiative impact of aerosol species is a key component to NASA's Earth System Enterprise.

Cattrall, Christopher

Hybrid Architecture Active Wavefront Sensing and Control

A method was developed for performing relatively high-speed wavefront sensing and control to overcome thermal instabilities in a segmented primary mirror telescope [e.g., James Webb Space Telescope (JWST) at L2], by using the onboard fine guidance sensor (FGS) to minimize expense and complexity. This FGS performs centroiding on a bright star to feed the information to the pointing and control system. The proposed concept is to beam split the image of the guide star (or use a single defocused guide star image) to perform wavefront sensing using phase retrieval techniques. Using the fine guidance sensor star image for guiding and fine phasing eliminates the need for other, more complex ways of achieving very accurate sensing and control that is needed for UV-optical applications. The phase retrieval occurs nearly constantly, so passive thermal stability over fourteen days is not required. Using the FGS as the sensor, one can feed segment update information to actuators on the primary mirror that can update the primary mirror segment fine phasing with this frequency. Because the thermal time constants of the primary mirror are very slow compared to this duration, the mirror will appear extremely stable during observations (to the level of accuracy of the sensing and control). The sensing can use the same phase retrieval techniques as the JWST by employing an additional beam splitter, and having each channel go through a weak lens (one positive and one negative). The channels can use common or separate detectors. Phase retrieval can be performed onboard. The actuation scheme would include a coarse stage able to achieve initial alignment of several millimeters of range (similar to JWST and can use a JWST heritage sensing approach in the science camera) and a fine stage capable of continual updates.

Feinberg, Lee