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In order to determine the 3D structure of a thick sample, researchers have recently combined ptychography (for high resolution) and tomography (for 3D imaging) in a single experiment. 2-step methods are usually adopted for reconstruction, where the ptychography and tomography problems are often solved independently. In this paper, we provide a novel model and ADMM-based algorithm to jointly solve the ptychography-tomography problem iteratively, also employing total variation regularization. The proposed method permits large scan stepsizes for the ptychography experiment, requiring less measurements and being more robust to noise with respect to other strategies, while achieving higher reconstruction quality results.

In order to determine the 3D structure of a thick sample, researchers have recently combined ptychography (for high resolution) and tomography (for 3D imaging) in a single experiment. 2-step methods are usually adopted for reconstruction, where the ptychography and tomography problems are often solved independently. In this paper, we provide a novel model and ADMM-based algorithm to jointly solve the ptychography-tomography problem iteratively, also employing total variation regularization. The proposed method permits large scan stepsizes for the ptychography experiment, requiring less measurements and being more robust to noise with respect to other strategies, while achieving higher reconstruction quality results.

The acquisition speed and spatial resolution of X-ray nanotomography have continuously improved over the last decades. Coherent diffraction-based techniques breach the 10 nm resolution barrier frequently and thus pose stringent demands on sample positioning accuracy and stability. At the same time there is an increasing desire to accommodate in situ or operando measurements. Here, an environmental control system for X-ray nanotomography is introduced to regulate the temperature of a sample from room temperature up to 850°C in a controlled atmospheric composition. The system allows for a 360° sample rotation, permitting tomographic studies in situ or operando free of missing wedge constraints. The system is implemented and available at the flOMNI microscope at the Swiss Light Source. In addition to the environmental control system itself, the related modifications of flOMNI are described. Tomographic measurements of a nanoporous gold sample at 50°C and 600°C at a resolution of sub-20 nm demonstrate the performance of the device.

In this paper, we focus on the approximation of smooth functions f : [ - π , π ] → C , up to an unresolvable global phase ambiguity, from a finite set of Short Time Fourier Transform (STFT) magnitude (i.e., spectrogram) measurements. Two algorithms are developed for approximately inverting such measurements, each with theoretical error guarantees establishing their correctness. A detailed numerical study also demonstrates that both algorithms work well in practice and have good numerical convergence behavior. [ABSTRACT FROM AUTHOR]

We study the problem of recovering a signal x ∈ C N from samples of its phaseless periodic short-time Fourier transform (STFT): the magnitude of the Fourier transform of the signal multiplied by a sliding window w ∈ C W . We show that if the window w is known, then a generic signal can be recovered, up to a global phase, from less than 4N phaseless STFT measurements. In the blind case, when the window is unknown, we show that the signal and the window can be determined simultaneously, up to a group of unavoidable ambiguities, from less than 4 N + 2 W measurements. In both cases, our bounds are optimal, up to a constant smaller than two. [ABSTRACT FROM AUTHOR]

A novel lensless imaging approach based on ptychography and wavefront separation is proposed in this paper, which was characterized by rapid convergence and high-quality imaging. In this method, an amplitude modulator was inserted between the light source and the sample for light wave modulation. By laterally translating this unknown modulator to different positions, we acquired a sequence of modulated intensity images for quantitative object recovery. In addition, to effectively separate the object and modulator wavefront, a couple of diffraction patterns without modulation were recorded. Optical experiments were performed to verify the feasibility of our approach by testing a resolution plate, a phase object, and an agaricus cell. [ABSTRACT FROM AUTHOR]

Table-top extreme ultraviolet (EUV) microscopy offers unique opportunities for label-free investigation of biological samples. Here, we demonstrate ptychographic EUV imaging of two dried, unstained model specimens: germlings of a fungus (Aspergillus nidulans), and bacteria (Escherichia coli) cells at 13.5 nm wavelength. We find that the EUV spectral region, which to date has not received much attention for biological imaging, offers sufficient penetration depths for the identification of intracellular features. By implementing a position-correlated ptychography approach, we demonstrate a millimeter-squared field of view enabled by infrared illumination combined with sub-60 nm spatial resolution achieved with EUV illumination on selected regions of interest. The strong element contrast at 13.5 nm wavelength enables the identification of the nanoscale material composition inside the specimens. Our work will advance and facilitate EUV imaging applications and enable further possibilities in life science. [ABSTRACT FROM AUTHOR]

The PERCIVAL detector is a CMOS imager designed for the soft X-ray regime at photon sources. Although still in its final development phase, it has recently seen its first user experiments: ptychography at a free-electron laser, holographic imaging at a storage ring and preliminary tests on X-ray photon correlation spectroscopy. The detector performed remarkably well in terms of spatial resolution achievable in the sample plane, owing to its small pixel size, large active area and very large dynamic range; but also in terms of its frame rate, which is significantly faster than traditional CCDs. In particular, it is the combination of these features which makes PERCIVAL an attractive option for soft X-ray science. [ABSTRACT FROM AUTHOR]

The interaction of a focused X-ray beam with a sample in a scanning probe experiment can provide a variety of information about the interaction volume. In many scanning probe experiments X-ray fluorescence (XRF) is supplemented with measurements of the transmitted or scattered intensity using a pixelated detector. The automated extraction of different signals from an area pixelated detector is described, in particular the methodology for extracting differential phase contrast (DPC) is demonstrated and different processing methods are compared across a range of samples. The phase shift of the transmitted X-ray beam by the sample, extracted from DPC, is also compared with ptychography measurements to provide a qualitative and quantitative comparison. While ptychography produces a superior image, DPC can offer a simple, flexible method for phase contrast imaging which can provide fast results and feedback during an experiment; furthermore, for many science problems, such as registration of XRF in a lighter matrix, DPC can provide sufficient information to meet the experimental aims. As the DPC technique is a quantitative measurement, it can be expanded to spectroscopic studies and a demonstration of DPC for spectro-microscopy measurements is presented. Where ptychography can separate the absorption and phase shifts by the sample, quantitative interpretation of a DPC image or spectro-microscopy signal can only be performed directly when absorption is negligible or where the absorption contribution is known and the contributions can be fitted. [ABSTRACT FROM AUTHOR]

We present a deep learning-based generative model for the enhancement of partially coherent diffractive images. In lensless coherent diffractive imaging, a highly coherent X-ray illumination is required to image an object at high resolution. Non-ideal experimental conditions result in a partially coherent X-ray illumination, lead to imperfections of coherent diffractive images recorded on a detector, and ultimately limit the capability of lensless coherent diffractive imaging. The previous approaches, relying on the coherence property of illumination, require preliminary experiments or expensive computations. In this article, we propose a generative adversarial network (GAN) model to enhance the visibility of fringes in partially coherent diffractive images. Unlike previous approaches, the model is trained to restore the latent sharp features from blurred input images without finding coherence properties of illumination. We demonstrate that the GAN model performs well with both coherent diffractive imaging and ptychography. It can be applied to a wide range of imaging techniques relying on phase retrieval of coherent diffraction patterns.

• Have good tolerance to low coherence for both far- and near-field ptychography. • Require no prior knowledge of the source coherence properties. • Can be integrated into all of the existing ptychography engines. • Reduce the Krylov subspace searching scope for the numerical monochromatization. • Reduce the needed probe modes for mixed-state (Nature, 2013, 494: 68–71) method. Ptychography is now integrated as a tool in mainstream microscopy allowing quantitative and high-resolution imaging capabilities over a wide field of view. However, its ultimate performance is inevitably limited by the available coherent flux when implemented using electrons or laboratory X-ray sources. We present a universal reconstruction algorithm with high tolerance to low coherence for both far-field and near-field ptychography. The approach is practical for partial temporal and spatial coherence and requires no prior knowledge of the source properties. Our initial visible-light and electron data show that the method can dramatically improve the reconstruction quality and accelerate the convergence rate of the reconstruction. The approach also integrates well into existing ptychographic engines. It can also improve mixed-state and numerical monochromatisation methods, requiring a smaller number of coherent modes or lower dimensionality of Krylov subspace while providing more stable and faster convergence. We propose that this approach could have significant impact on ptychography of weakly scattering samples. [ABSTRACT FROM AUTHOR]

Over the last decade ptychography has progressed rapidly from a specialist ultramicroscopy technique into a mature method accessible to non-expert users. However, to improve scientific value ptychography data must reconstruct reliably, with high image quality and at no cost to other correlative methods. Presented here is the implementation of high-speed ptychography used at the Australian Synchrotron on the XFM beamline, which includes a free-run data collection mode where dead time is eliminated and the scan time is optimized. It is shown that free-run data collection is viable for fast and high-quality ptychography by demonstrating extremely high data rate acquisition covering areas up to 352 000 µm2 at up to 140 µm2 s−1, with 13× spatial resolution enhancement compared with the beam size. With these improvements, ptychography at velocities up to 250 µm s−1 is approaching speeds compatible with fast-scanning X-ray fluorescence microscopy. The combination of these methods provides morphological context for elemental and chemical information, enabling unique scientific outcomes.

Coherent ptychographic imaging experiments often discard the majority of the flux from a light source to define the coherence of the illumination. Even when the coherent flux is sufficient, the stability required during an exposure is another important limiting factor. Partial coherence analysis can considerably reduce these limitations. A partially coherent illumination can often be written as the superposition of a single coherent illumination convolved with a separable translational kernel. This article proposes the gradient decomposition of the probe (GDP), a model that exploits translational kernel separability, coupling the variances of the kernel with the transverse coherence. An efficient first-order splitting algorithm (GDP-ADMM) for solving the proposed nonlinear optimization problem is described. Numerical experiments demonstrate the effectiveness of the proposed method with Gaussian and binary kernel functions in fly-scan measurements. Remarkably, GDP-ADMM using nanoprobes produces satisfactory results even when the ratio between the kernel width and the beam size is more than one, or when the distance between successive acquisitions is twice as large as the beam width.

A detailed analysis of ptychography for three-dimensional (3D) phase reconstructions of thick specimens is performed. We introduce multi-focus ptychography, which incorporates a 4D-STEM defocus series to enhance the quality of 3D reconstructions along the beam direction through a higher overdetermination ratio. This method is compared with established multi-slice ptychography techniques, such as conventional ptychography, regularized ptychography, and multi-mode ptychography. Additionally, we contrast multi-focus ptychography with an alternative method that uses virtual optical sectioning through a reconstructed scattering matrix (S-matrix), which offers more precise 3D structure information compared to conventional ptychography. Our findings from multiple 3D reconstructions based on simulated and experimental data demonstrate that multi-focus ptychography surpasses other techniques, particularly in accurately reconstructing the surfaces and interface regions of thick specimens., Competing Interests: Conflict of Interest The authors declare that they have no competing interest., (© The Author(s) 2024. Published by Oxford University Press on behalf of the Microscopy Society of America. All rights reserved. For commercial re-use, please contact reprints@oup.com for reprints and translation rights for reprints. All other permissions can be obtained through our RightsLink service via the Permissions link on the article page on our site—for further information please contact journals.permissions@oup.com.)

SiO2 aggregates in styrene-butadiene rubber (SBR) were observed using ptychographic X-ray computed tomography (PXCT). The rubber composites were illuminated with X-rays focused by total reflection focusing mirrors, and the ptychographic diffraction patterns were collected using a CITIUS detector in the range of -75° to +75° angle of incidence. The projection images of the rubber composites were reconstructed with a two-dimensional resolution of 76 nm, and no significant structural changes were observed during the PXCT measurements. A three-dimensional image of the rubber composite was reconstructed with an isotropic resolution of 98 nm. Segmentation of SiO2 from the SBR, based on a histogram analysis of the phase shift, revealed a fragmented network structure of interconnected SiO2 aggregates., Competing Interests: Conflict of Interest: The authors declare that they have no competing interest., (© The Author(s) 2024. Published by Oxford University Press on behalf of the Microscopy Society of America.)

The properties of materials are strongly correlated with their atomic scale structures. Achieving a comprehensive understanding of the atomic-scale structure-property relationship requires advancements of imaging and spectroscopy techniques. Aberration-corrected scanning transmission electron microscopy (STEM) has seen rapid development over the past decades and is now routinely employed for atomic-scale characterization. However, quantitative STEM imaging and spectroscopy analysis at the single-atom level is challenging due to the extremely weak signals generated from individual atom, thus imposing stringent requirements for analysis sensitivity. This review discusses the development and application of low-voltage STEM techniques with single-atom sensitivity, primarily based on recent research presented on an invited talk at the 5th 2D23 SALVE Symposium, including annular dark-field (ADF) imaging, functional imaging and electron energy-loss spectroscopy (EELS) analysis. Carbon-based nanomaterials were chosen as model systems for demonstrating the capabilities of single-atom STEM imaging and EELS analysis, due to their structural stability under low accelerating voltages and their rich physical and chemical properties. Moreover, this review summarizes recent advancements and applications of low-voltage single-atom STEM imaging and spectroscopy in the study of functional materials and discusses prospects for future developments., Competing Interests: Declaration of Competing Interest The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper., (Copyright © 2024 Elsevier Ltd. All rights reserved.)

The acquisition speed and spatial resolution of X-ray nanotomography have continuously improved over the last decades. Coherent diffraction-based techniques breach the 10 nm resolution barrier frequently and thus pose stringent demands on sample positioning accuracy and stability. At the same time there is an increasing desire to accommodate in situ or operando measurements. Here, an environmental control system for X-ray nanotomography is introduced to regulate the temperature of a sample from room temperature up to 850°C in a controlled atmospheric composition. The system allows for a 360° sample rotation, permitting tomographic studies in situ or operando free of missing wedge constraints. The system is implemented and available at the flOMNI microscope at the Swiss Light Source. In addition to the environmental control system itself, the related modifications of flOMNI are described. Tomographic measurements of a nanoporous gold sample at 50°C and 600°C at a resolution of sub-20 nm demonstrate the performance of the device. [ABSTRACT FROM AUTHOR]

Extreme ultraviolet (EUV) lithography is expected to be used for 3 nm technology nodes and beyond, yet the need for actinic mask metrology and inspection remains a critical challenge. In this study, we demonstrate an EUV ptychography microscope as a high-harmonic generation-based actinic mask imaging tool. A series of diffraction patterns on an EUV mask is used to reconstruct both the amplitude and phase information of the periodic patterns using ptychographic algorithms. The results show that the EUV ptychography microscope has the potential for determining the actinic metrology of EUV masks and providing phase information for EUV mask development. [ABSTRACT FROM AUTHOR]

BackgroundThe ever improving brightness of accelerator based sources is enabling novel observations and discoveries with faster frame rates, larger fields of view, higher resolution, and higher dimensionality.ResultsHere we present an integrated software/algorithmic framework designed to capitalize on high-throughput experiments through efficient kernels, load-balanced workflows, which are scalable in design. We describe the streamlined processing pipeline of ptychography data analysis.ConclusionsThe pipeline provides throughput, compression, and resolution as well as rapid feedback to the microscope operators.

Recent development in fast pixelated detector technology has allowed a two dimensional diffraction pattern to be recorded at every probe position of a two dimensional raster scan in a scanning transmission electron microscope (STEM), forming an information-rich four dimensional (4D) dataset. Electron ptychography has been shown to enable efficient coherent phase imaging of weakly scattering objects from a 4D dataset recorded using a focused electron probe, which is optimised for simultaneous incoherent Z-contrast imaging and spectroscopy in STEM. Therefore coherent phase contrast and incoherent Z-contrast imaging modes can be efficiently combined to provide a good sensitivity of both light and heavy elements at atomic resolution. In this work, we explore the application of electron ptychography for atomic resolution imaging of strongly scattering crystalline specimens, and present experiments on imaging crystalline specimens including samples containing defects, under dynamical channelling conditions using an aberration corrected microscope. A ptychographic reconstruction method called Wigner distribution deconvolution (WDD) was implemented. Experimental results and simulation results suggest that ptychography provides a readily interpretable phase image and great sensitivity for imaging light elements at atomic resolution in relatively thin crystalline materials.

Computational methods are driving high impact microscopy techniques such as ptychography. However, the design and implementation of new algorithms is often a laborious process, as many parts of the code are written in close-to-the-hardware programming constructs to speed up the reconstruction. In this article, we present SciComPty, a new ptychography software framework aiming at simulating ptychography datasets and testing state-of-the-art and new reconstruction algorithms. Despite its simplicity, the software leverages GPU accelerated processing through the PyTorch CUDA interface. This is essential for designing new methods that can readily be employed. As an example, we present an improved position refinement method based on Adam and a new version of the rPIE algorithm, adapted for partial coherence setups. Results are shown on both synthetic and real datasets. The software is released as open-source.

• A material pattern reconstruction technique based on terahertz waves is proposed for the first time, and experimental result similar to the ideal simulation is obtained. • A generalized model for general image reconstruction is proposed. • Combined with the deep blind degradation algorithm based on physical features and the random shuffle strategy, completed the establishment of the mapping relationship of the data set in the complex real environment. • Based on the existing technology, a scheme combining game theory and neural network is proposed to effectively improve the quality of material pattern reconstruction of terahertz ptychography. • The inclusion noise and high humidity of the weak terahertz radiation source simulate the working environment of the terahertz optical imaging system under harsh conditions. Finally, good imaging results approximate to the ideal conditions are obtained by our method. Ptychography is an imaging technique that uses the redundancy of information generated by the overlapping of adjacent light regions to calculate the relative phase of adjacent regions and reconstruct the image. In the terahertz domain, in order to make the ptychography technology better serve engineering applications, we propose a set of deep learning terahertz ptychography system that is easier to realize in engineering and plays an outstanding role. To address this issue, we propose to use a powerful deep blind degradation model which uses isotropic and anisotropic Gaussian kernels for random blurring, chooses the downsampling modes from nearest interpolation, bilinear interpolation, bicubic interpolation and down-up-sampling method, and introduces Gaussian noise, JPEG compression noise, and processed detector noise. Additionally, a random shuffle strategy is used to further expand the degradation space of the image. Using paired low/high resolution images generated by the deep blind degradation model, we trained a multi-layer residual network with residual scaling parameters and dense connection structure to achieve the neural network super-resolution of terahertz ptychography for the first time. We use two representative neural networks, SwinIR and RealESRGAN, to compare with our model. Experimental result shows that the proposed method achieved better accuracy and visual improvement than other terahertz ptychographic image super-resolution algorithms. Further quantitative calculation proved that our method has significant advantages in terahertz ptychographic image super-resolution, achieving a resolution of 33.09 dB on the peak signal-to-noise ratio (PSNR) index and 3.05 on the naturalness image quality estimator (NIQE) index. This efficient and engineered approach fills the gap in the improvement of terahertz ptychography by using neural networks. [ABSTRACT FROM AUTHOR]

• Extending the modeling of locally separated samples to the standard ePIE algorithm in the context of fly-scan ptychography. • The approach is much better than mixed-state method in large step size fly-scan ptychography. • The further integration with mixed-state method allows addressing vibration issues in high-speed fly-scan scenarios. • This algorithm offers a promising solution for high-speed fly-scan ptychography applications. Ptychography is a coherent diffractive imaging method that can achieve diffraction-limited resolution. A fly-scan mode in ptychography can mitigate time costs comparing to traditional step-scan processes. However, expanding fly-scan step size may lead to the failure of traditional phase retrieval algorithm. Here, the method we adopt differs from the multi-mode method that has become popular at X-ray synchrotrons in that it models each diffraction pattern as a sum of shifted object patches, rather than the incoherent sum of a number of modes. This methodology is extended to the standard ePIE algorithm called Multi-object ePIE (Mo-ePIE), and simulation and experimental results demonstrate its effectiveness in handling large step size fly-scan, achieving reconstructions with up to 25 maximum fly-scan pixels. Furthermore, the reintegration with multi-mode probe methods can address potential issues of system decoherence, further enhancing the quality of reconstruction. This algorithm exhibits substantial potential in accelerating ptychography experiments, offering a promising solution for high-speed applications. [ABSTRACT FROM AUTHOR]

As a unique coherent diffraction imaging method, X-ray ptychography has an ultrahigh resolution of several nanometers for extended samples. However, ptychography is often degraded by various noises that are mixed with diffracted signals on the detector. Some of the noises can transform into periodic artifacts (PAs) in reconstructed images, which is a basic problem in raster-scan ptychography. Herein, we propose a novel periodic-artifact suppressing algorithm (PASA) and present a new understanding of PAs or raster-grid pathology generation mechanisms, which include static intensity (SI) as an important cause of PAs. The PASA employs a gradient descent scheme to iteratively separate the SI pattern from original datasets and a probe support constraint applied in the object update. Both simulative and experimental data reconstructions demonstrated the effectiveness of the new algorithm in suppressing PAs and improving ptychography resolution and indicated a better performance of the PASA method in PA removal compared to other mainstream algorithms. In the meantime, we provided a complete description of SI conception and its key role in PA generation. The present work enhances the feasibility of raster-scan ptychography and could inspire new thoughts for dealing with various noises in ptychography.

We present a deep learning-based generative model for the enhancement of partially coherent diffractive images. In lensless coherent diffractive imaging, a highly coherent X-ray illumination is required to image an object at high resolution. Non-ideal experimental conditions result in a partially coherent X-ray illumination, lead to imperfections of coherent diffractive images recorded on a detector, and ultimately limit the capability of lensless coherent diffractive imaging. The previous approaches, relying on the coherence property of illumination, require preliminary experiments or expensive computations. In this article, we propose a generative adversarial network (GAN) model to enhance the visibility of fringes in partially coherent diffractive images. Unlike previous approaches, the model is trained to restore the latent sharp features from blurred input images without finding coherence properties of illumination. We demonstrate that the GAN model performs well with both coherent diffractive imaging and ptychography. It can be applied to a wide range of imaging techniques relying on phase retrieval of coherent diffraction patterns. [ABSTRACT FROM AUTHOR]

Light microscopy has changed considerably over the last century. Nevertheless, it still suffers the limitation of being performed in laboratories, what causes delays to results, partial sampling and non‐continuous measurements. Here we will demonstrate chip‐sized microscopes produced only with microelectronic technologies. With a LED micro‐display as a main component and a photodetector, both raster and multi‐holographic lensless microscopes were demonstrated. The field of view of the microscopes is given by the micro‐display area while LED size limits the resolution. Their low cost in volume manufacturing and chip‐sized compactness will allow ubiquitous microscopy soon. [ABSTRACT FROM AUTHOR]

Since image processing algorithms can work with a vast volume of data easily, optical cryptographic techniques are commonly used in image security. Since the proposed DRPE, image encryption in particular has gotten a lot of coverage. DRPE employs various approaches for example-4f and Fourier Transform (FT) to encrypt local as well as spectral data; image encryption is done on the basis of input along with the Fourier planes using random phase coding. The complete process of encryption transforms the input image to a white sound in this manner. Confidentiality is obtained by the method of translation. Only when the information of location and the secret key are perfectly matched would the secret picture be revealed. Random category masks may be thought of as hidden keys in general, and since the key space is too big, blind deconvolution alone is insufficient to reconstruct the original picture. The standard DRPE methodology was discussed in this paper, as well as its numerical emulation, sampling considerations in the spatial as well as frequency domains, and the benefits and drawbacks of different transforms. Additionally, certain optical coding and scrambling methods are investigated. The paper ends with a discussion of recent advances in the area of optical image encryption, as well as a look forward to the future challenges. [ABSTRACT FROM AUTHOR]

A series of regioisomers of the hydroxystearic acid (HSA) was prepared, and the effect of the position of the hydroxyl group along the chain on a panel of human cancer cell lines was investigated. Among the various regioisomers, those carrying the hydroxyl at positions 5, 7, and 9 had growth inhibitor activity against various human tumor cell lines, including CaCo-2, HT29, HeLa, MCF7, PC3, and NLF cells. 10-HSA and 11-HSA showed a very weak effect. 8-HSA did not show inhibitory activity in all cell lines. The biological role of 7-HSA and 9-HSA is widely recognized, while little is known about the effects of 5-HSA. Therefore, the biological effects of 5-HSA in HeLa, HT29, MCF7, and NLF cell lines were investigated using the Livecyte's ptychography technology, which allows correlating changes in proliferation, motility, and morphology as a function of treatment at the same time. 5-HSA not only reduces cell proliferation but also induces changes in cell displacement, directionality, and speed. It is important to characterize the biological effects of 5-HSA, this molecule being an important component of fatty acyl esters of hydroxy fatty acids (FAHFA), a class of endogenous mammalian lipids with noticeable anti-diabetic and anti-inflammatory effects. [ABSTRACT FROM AUTHOR]

Characterizing the chemistry and magnetism of magnetotactic bacteria (MTB) is an important aspect of understanding the biomineralization mechanism and function of the chains of magnetosomes (Fe3O4 nanoparticles) found in such species. Images and X-ray absorption spectra (XAS) of magnetosomes extracted from, and magnetosomes in, whole Magnetovibrio blakemorei strain MV-1 cells have been recorded using soft X-ray ptychography at the Fe 2p edge. A spatial resolution of 7 nm is demonstrated. Precursor-like and immature magnetosome phases in a whole MV-1 cell were visualized, and their Fe 2p spectra were measured. Based on these results, a model for the pathway of magnetosome biomineralization for MV-1 is proposed. Fe 2p X-ray magnetic circular dichroism (XMCD) spectra have been derived from ptychography image sequences recorded using left and right circular polarization. The shape of the XAS and XMCD signals in the ptychographic absorption spectra of both sample types is identical to the shape and signals measured with conventional bright-field scanning transmission X-ray microscope. A weaker and inverted XMCD signal was observed in the ptychographic phase spectra of the extracted magnetosomes. The XMCD ptychographic phase spectrum of the intracellular magnetosomes differed from the ptychographic phase spectrum of the extracted magnetosomes. These results demonstrate that spectro-ptychography offers a superior means of characterizing the chemical and magnetic properties of MTB at the individual magnetosome level.

The ability to image light elements in both crystalline and noncrystalline materials at near atomic resolution with an enhanced contrast is highly advantageous to understand the structure and properties of a wide range of beam sensitive materials including biological specimens and molecular hetero-structures. This requires the imaging system to have an efficient phase contrast transfer at both low and high spatial frequencies. In this work we introduce a new phase contrast imaging method in a scanning transmission electron microscope (STEM) using a pre-specimen phase plate in the probe forming aperture, combined with a fast pixelated detector to record diffraction patterns at every probe position, and phase reconstruction using ptychography. The phase plate significantly enhances the contrast transfer of low spatial frequency information, and ptychography maximizes the extraction of the phase information at all spatial frequencies. In addition, the STEM probe with the presence of the phase plate retains its atomic resolution, allowing simultaneous incoherent Z-contrast imaging to be obtained along with the ptychographic phase image. An experimental image of Au nanoparticles on a carbon support shows high contrast for both materials. Multislice image simulations of a DNA molecule shows the capability of imaging soft matter at low dose conditions, which implies potential applications of low dose imaging of a wide range of beam sensitive materials.

Ever brighter light sources, fast parallel detectors and advances in phase retrieval methods have made ptychography a practical and popular imaging technique. Compared to previous techniques, ptychography provides superior robustness and resolution at the expense of more advanced and time-consuming data analysis. By taking advantage of massively parallel architectures, high-throughput processing can expedite this analysis and provide microscopists with immediate feedback. These advances allow real-time imaging at wavelength-limited resolution, coupled with a large field of view. This article describes a set of algorithmic and computational methodologies used at the Advanced Light Source and US Department of Energy light sources. These are packaged as a CUDA-based software environment named SHARP (http://camera.lbl.gov/sharp), aimed at providing state-of-the-art high-throughput ptychography reconstructions for the coming era of diffraction-limited light sources.The SHARP framework provides fast images from high-throughput ptychographic datasets and a corner stone for demanding higher-dimensional analysis such as spectro-ptychography or tomo-ptychography.

Over the last decade ptychography has progressed rapidly from a specialist ultramicroscopy technique into a mature method accessible to non‐expert users. However, to improve scientific value ptychography data must reconstruct reliably, with high image quality and at no cost to other correlative methods. Presented here is the implementation of high‐speed ptychography used at the Australian Synchrotron on the XFM beamline, which includes a free‐run data collection mode where dead time is eliminated and the scan time is optimized. It is shown that free‐run data collection is viable for fast and high‐quality ptychography by demonstrating extremely high data rate acquisition covering areas up to 352 000 µm2 at up to 140 µm2 s−1, with 13× spatial resolution enhancement compared with the beam size. With these improvements, ptychography at velocities up to 250 µm s−1 is approaching speeds compatible with fast‐scanning X‐ray fluorescence microscopy. The combination of these methods provides morphological context for elemental and chemical information, enabling unique scientific outcomes. [ABSTRACT FROM AUTHOR]

In this paper, a new image encryption system based on joint transformation correlation principle and ptycholographic iterative engine is proposed. When the encryption is performed, the original image can be divided into several parts by using the scanning movement of the probe. Each part is encrypted by the joint transformation correlation technology, and the ciphertexts are finally transmitted in the form of many encrypted images. The receiver uses the working principle of the joint transform correlator to decrypt and reconstructs the image by using the ptycholographic iterative engine, which can integrate multiple images with less information into one high-precision decrypted image. Computer simulations prove its possibility.

A novel lensless imaging approach based on ptychography and wavefront separation is proposed in this paper, which was characterized by rapid convergence and high-quality imaging. In this method, an amplitude modulator was inserted between the light source and the sample for light wave modulation. By laterally translating this unknown modulator to different positions, we acquired a sequence of modulated intensity images for quantitative object recovery. In addition, to effectively separate the object and modulator wavefront, a couple of diffraction patterns without modulation were recorded. Optical experiments were performed to verify the feasibility of our approach by testing a resolution plate, a phase object, and an agaricus cell.

Achieving microscopy with large space-bandwidth products plays a key role in diagnostic imaging and is widely significant in the overall field of clinical practice. Among quantitative microscopy techniques, Fourier Ptychography (FP) provides a wide field of view and high-resolution images, suitable to the histopathological field, but onerous in computational terms. Artificial intelligence can be a solution in this sense. In particular, this research delves into the application of Generative Adversarial Networks (GAN) for the dual-channel complex FP image enhancement of human kidney samples. The study underscores the GANs' efficacy in promoting biological architectures in FP domain, thereby still guaranteeing high resolution and visibility of detailed microscopic structures. We demonstrate successful GAN-based enhanced reconstruction through two strategies: cross-explainability and expert survey. The cross-explainability is evaluated through the comparison of explanation maps for both real and imaginary components underlining its robustness. This comparison further shows that their interplay is pivotal for accurate reconstruction without hallucinations. Secondly, the enhanced reconstruction accuracy and effectiveness in a clinical workflow are confirmed through a two-step survey conducted with nephrologists., Competing Interests: Declaration of competing interest The authors declare the following financial interests/personal relationships which may be considered as potential competing interests: Authors M.V., V.B., L.M., P.M., P.Fe., P.Fi., F.B., and R.T. declare no financial or any other competing interest associated with the present manuscript. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest., (Copyright © 2024 The Author(s). Published by Elsevier Ltd.. All rights reserved.)

Single-particle analysis (SPA) is a fundamental method of cryo-electron microscopy developed to resolve the structures of biological macromolecules. This method has seen significant success in structural biology, yet its potential applications in synthetic chemical systems remain underexplored. In this perspective article, SPA and associated electron microscopy techniques are first briefly introduced. It is then proposed that SPA is well-suited for structural analysis of chemical systems where discrete, identical macromolecules can be readily obtained. Applicable systems include various clusters such as coinage metal clusters, metal-oxo/sulfur clusters, metal-organic clusters, and supramolecular compounds like coordination cages and metallo-supramolecular cages. When high-quality large single crystals are unattainable, SPA provides an alternative method for determining their structures. Beyond these end products, it is suggested that SPA can be instrumental in studying synthetic intermediates of materials with specific building units, such as metal-organic frameworks and zeolites. Given that various intermediates coexist in the reaction system, a purification step is necessary before conducting SPA, which can be facilitated by soft-landing electrospray ionization mass spectrometry., (© 2024 Wiley‐VCH GmbH.)

The performance of metal and polymer foams used in inertial confinement fusion (ICF), inertial fusion energy (IFE), and high-energy-density (HED) experiments is currently limited by our understanding of their nanostructure and its variation in bulk material. We utilized an X-ray-free electron laser (XFEL) together with lensless X-ray imaging techniques to probe the 3D morphology of copper foams at nanoscale resolution (28 nm). The observed morphology of the thin shells is more varied than expected from previous characterizations, with a large number of them distorted, merged, or open, and a targeted mass density 14% less than calculated. This nanoscale information can be used to directly inform and improve foam modeling and fabrication methods to create a tailored material response for HED experiments.

A new configuration for near-field ptychography using a full-field illumination with a structured electron beam is proposed. A structured electron beam illuminating the entire field of view is scanned over the specimen, and a series of in-line holograms formed in the near-field region below the specimen are collected. The structured beam is generated by a conductive film with random openings, which ensures high stability and coherence of the beam. Observation in the near-field region reduces the beam concentration that occurs in the far-field region, which contributes to accurate recording of the beam intensity with a finite dynamic range of the detectors. The use of full-field illumination prevents the accumulation of errors caused by concatenating the local structures, which is the method used in conventional reconstruction. Since all holograms are obtained from the entire field of view, they have uniform multiplicity in terms of specimen information within the field of view. This contributes to robust and efficient reconstruction for a large field of view. The proposed method was tested using both simulated and experimental holograms. For the simulated holograms, the reconstruction of the specimen transmission function was achieved with an error less than 1/3485 of the wavelength. The method was further validated using experimental holograms obtained from MgO particles. The reconstructed phase transmission function of the specimen was consistent with the specimen structure and was equivalent to a mean inner potential of V on the MgO particle, which is in close agreement with previously reported values., (© The Author(s) 2024. Published by Oxford University Press on behalf of The Japanese Society of Microscopy.)