Lateral resolution enhancement with standing evanescent waves

All-dielectric super-lattice metasurfaces with fivefold spatial resolution enhancement for structured illumination microscopy

Structured illumination microscopy (SIM) is a promising imaging technique for high-resolution imaging with a wide field of view. Although a periodic nanostructure is a versatile platform for engineering the spatial frequency of structured illumination patterns in SIM, challenges remain, including artifacts from Fourier space gaps. We designed an all-dielectric super-lattice metasurface (ADSLM) to generate structured illumination patterns with enhanced spatial frequency and broadened spatial frequency coverage with no intermediate frequency gaps. Our numerical simulations reveal that ADSLM-based image reconstruction is capable of producing high-contrast, artifact-free images, resulting in enhanced spatial resolution up to 5.7-fold for coherent SIM at 450 nm. Our results show that the ADSLM-SIM technique may facilitate high-resolution imaging using CMOS-compatible substrates, offering potential for compact miniaturized imaging applications.

Improving the resolution of Fourier ptychographic imaging using an a priori neural network

In this paper, we propose a dual-structured prior neural network model that independently restores both the amplitude and phase image using a random latent code for Fourier ptychography (FP). We demonstrate that the inherent prior information within the neural network can generate super-resolution images with a resolution that exceeds the combined numerical aperture of the FP system. This method circumvents the need for a large labeled dataset. The training process is guided by an appropriate forward physical model. We validate the effectiveness of our approach through simulations and experimental data. The results suggest that integrating image prior information with system-collected data is a potentially effective approach for improving the resolution of FP systems.

Grazing incidence to total internal reflection fluorescence structured illumination microscopy enabled by a prism telescope

In super-resolution structured illumination microscopy (SR-SIM) the separation between opposing laser spots in the back focal plane of the objective lens affects the pattern periodicity, and, thus, the resulting spatial resolution. Here, we introduce a novel hexagonal prism telescope which allows us to seamlessly change the separation between parallel laser beams for 3 pairs of beams, simultaneously. Each end of the prism telescope is composed of 6 Littrow prisms, which are custom-ground so they can be grouped together in the form of a tight hexagon. By changing the distance between the hexagons, the beam separation can be adjusted. This allows us to easily control the position of opposing laser spots in the back focal plane and seamlessly adjust the spatial frequency of the resulting interference pattern. This also enables the seamless transition from 2D-SIM to total internal reflection fluorescence (TIRF) excitation using objective lenses with a high numerical aperture. In linear SR-SIM the highest spatial resolution can be achieved for extreme TIRF angles. The prism telescope allows us to investigate how the spatial resolution and contrast depend on the angle of incidence near, at, and beyond the critical angle. We demonstrate this by imaging the cytoskeleton and plasma membrane of liver sinusoidal endothelial cells, which have a characteristic morphology consisting of thousands of small, transcellular pores that can only be observed by super-resolution microscopy.

Superresolution structured illumination microscopy reconstruction algorithms: a review

Structured illumination microscopy (SIM) has become the standard for next-generation wide-field microscopy, offering ultrahigh imaging speed, superresolution, a large field-of-view, and long-term imaging. Over the past decade, SIM hardware and software have flourished, leading to successful applications in various biological questions. However, unlocking the full potential of SIM system hardware requires the development of advanced reconstruction algorithms. Here, we introduce the basic theory of two SIM algorithms, namely, optical sectioning SIM (OS-SIM) and superresolution SIM (SR-SIM), and summarize their implementation modalities. We then provide a brief overview of existing OS-SIM processing algorithms and review the development of SR-SIM reconstruction algorithms, focusing primarily on 2D-SIM, 3D-SIM, and blind-SIM. To showcase the state-of-the-art development of SIM systems and assist users in selecting a commercial SIM system for a specific application, we compare the features of representative off-the-shelf SIM systems. Finally, we provide perspectives on the potential future developments of SIM.

UV photonic integrated circuits for far-field structured illumination autofluorescence microscopy

Ultra-violet (UV) light has still a limited scope in optical microscopy despite its potential advantages over visible light in terms of optical resolution and of interaction with a wide variety of biological molecules. The main challenge is to control in a robust, compact and cost-effective way UV light beams at the level of a single optical spatial mode and concomitantly to minimize the light propagation loss. To tackle this challenge, we present here photonic integrated circuits made of aluminum oxide thin layers that are compatible with both UV light and high-volume manufacturing. These photonic circuits designed at a wavelength of 360 nm enable super-resolved structured illumination microscopy with conventional wide-field microscopes and without modifying the usual protocol for handling the object to be imaged. As a biological application, we show that our UV photonic chips enable to image the autofluorescence of yeast cells and reveal features unresolved with standard wide-field microscopy.

Here, the authors develop a UV-compatible photonic integrated circuit for structured illumination microscopy on a conventional wide-field microscope. Operating at a wavelength of 360 nm, they generate switchable far-field fringe patterns, and demonstrate autofluorescence imaging of yeast cells.

Terahertz imaging using optically controlled Fourier-basis structured illumination

We demonstrate that a new type of structured-illumination imaging may be migrated from the optical to the terahertz domain. This Fourier-basis technique involves illuminating a target with rapidly moving sinusoidal fringes of controllable spatial frequency and orientation, while measuring the scattered radiation on a single fast detector. This initial proof-of-concept demonstration is purely one-dimensional since the fringe orientation is fixed, but the technique is readily extensible to two dimensions. The fringes are first generated in the near-infrared (808 nm) by passing a high-power laser beam through an acousto-optic Bragg cell driven by a superposition of two RF signals slightly offset in frequency, blocking the undeflected beam, and refocusing the two diffracted beams onto a metal-backed semiconductor wafer. The laser can be amplitude modulated to slow down the moving fringes to accommodate the semiconductor's temporal response. The semiconductor acts as an optically addressed spatiotemporal modulator for a THz beam illuminating the same area. The periodic optical fringes effectively transform the semiconductor into a reflective THz diffraction grating with a programmable period. The diffracted THz radiation is then imaged onto the remote target plane, where the diffraction orders interfere pairwise to create traveling THz fringes. Scattered radiation from the target is collected by a simple receiver operating in "light bucket" mode, which produces an output signal consisting of a superposition of sinusoidal tones, one for each spatial Fourier component of the target. We present measurements of the THz fringe projector's performance and compare with a model of the semiconductor modulator's operation. Finally, we present Fourier-reconstructed images of pairs of point targets as an initial demonstration of THz Fourier-basis agile structured illumination sensing imaging.

Telomere Dysfunction Is Associated with Altered DNA Organization in Trichoplein/Tchp/Mitostatin (TpMs) Depleted Cells

Recently, we highlighted a novel role for the protein Trichoplein/TCHP/Mitostatin (TpMs), both as mitotic checkpoint regulator and guardian of chromosomal stability. TpMs-depleted cells show numerical and structural chromosome alterations that lead to genomic instability. This condition is a major driving force in malignant transformation as it allows for the cells acquiring new functional capabilities to proliferate and disseminate. Here, the effect of TpMs depletion was investigated in different TpMs-depleted cell lines by means of 3D imaging and 3D Structured illumination Microscopy. We show that TpMs depletion causes alterations in the 3D architecture of telomeres in colon cancer HCT116 cells. These findings are consistent with chromosome alterations that lead to genomic instability. Furthermore, TpMs depletion changes the spatial arrangement of chromosomes and other nuclear components. Modified nuclear architecture and organization potentially induce variations that precede the onset of genomic instability and are considered as markers of malignant transformation. Our present observations connect the tumor suppression ability of TpMs with its novel functions in maintaining the proper chromosomal segregation as well as the proper telomere and nuclear architecture. Further investigations will investigate the connection between alterations in telomeres and nuclear architecture with the progression of human tumors with the aim of developing personalized therapeutic interventions.

Answering some questions about structured illumination microscopy

Structured illumination microscopy (SIM) provides images of fluorescent objects at an enhanced resolution greater than that of conventional epifluorescence wide-field microscopy. Initially demonstrated in 1999 to enhance the lateral resolution twofold, it has since been extended to enhance axial resolution twofold (2008), applied to live-cell imaging (2009) and combined with myriad other techniques, including interferometric detection (2008), confocal microscopy (2010) and light sheet illumination (2012). Despite these impressive developments, SIM remains, perhaps, the most poorly understood 'super-resolution' method. In this article, we provide answers to the 13 questions regarding SIM proposed by Prakash et al. along with answers to a further three questions. After providing a general overview of the technique and its developments, we explain why SIM as normally used is still diffraction-limited. We then highlight the necessity for a non-polynomial, and not just nonlinear, response to the illuminating light in order to make SIM a true, diffraction-unlimited, super-resolution technique. In addition, we present a derivation of a real-space SIM reconstruction approach that can be used to process conventional SIM and image scanning microscopy (ISM) data and extended to process data with quasi-arbitrary illumination patterns. Finally, we provide a simple bibliometric analysis of SIM development over the past two decades and provide a short outlook on potential future work. This article is part of the Theo Murphy meeting issue 'Super-resolution structured illumination microscopy (part 2)'.

sCMOS Noise-Corrected Superresolution Reconstruction Algorithm for Structured Illumination Microscopy

Structured illumination microscopy (SIM) is widely applied due to its high temporal and spatial resolution imaging ability. sCMOS cameras are often used in SIM due to their superior sensitivity, resolution, field of view, and frame rates. However, the unique single-pixel-dependent readout noise of sCMOS cameras may lead to SIM reconstruction artefacts and affect the accuracy of subsequent statistical analysis. We first established a nonuniform sCMOS noise model to address this issue, which incorporates the single-pixel-dependent offset, gain, and variance based on the SIM imaging process. The simulation indicates that the sCMOS pixel-dependent readout noise causes artefacts in the reconstructed SIM superresolution (SR) image. Thus, we propose a novel sCMOS noise-corrected SIM reconstruction algorithm derived from the imaging model, which can effectively suppress the sCMOS noise-related reconstruction artefacts and improve the signal-to-noise ratio (SNR).

Three-dimensional imaging through patterned type-1 microscopy

We report a scanning non-confocal fluorescence microscopy scheme that provides images with optical sectioning and with a lateral resolution that surpasses by a factor of two the diffraction resolution limit. This technique is based on the type-1 microscopy concept combined with patterned illumination. The method does not require the application of phase-shifting or post-processing algorithms and provides artifact-free superresolved 3D images. We have validated the theory by means of experimental data.

Evanescent waves modulate energy efficiency of photocatalysis within TiO2 coated optical fibers illuminated using LEDs

Coupling photocatalyst-coated optical fibers (P-OFs) with LEDs shows potential in environmental applications. Here we report a strategy to maximize P-OF light usage and quantify interactions between two forms of light energy (refracted light and evanescent waves) and surface-coated photocatalysts. Different TiO₂-coated quartz optical fibers (TiO₂-QOFs) are synthesized and characterized. An energy balance model is then developed by correlating different nano-size TiO₂ coating structures with light propagation modes in TiO₂-QOFs. By reducing TiO₂ patchiness on optical fibers to 0.034 cm²/cm² and increasing the average interspace distance between fiber surfaces and TiO₂ coating layers to 114.3 nm, refraction is largely reduced when light is launched into TiO₂-QOFs, and 91% of light propagated on the fiber surface is evanescent waves. 24% of the generated evanescent waves are not absorbed by nano-TiO₂ and returned to optical fibers, thus increasing the quantum yield during degradation of a refractory pollutant (carbamazepine) in water by 32%. Our model also predicts that extending the TiO₂-QOF length could fully use the returned light to double the carbamazepine degradation and quantum yield. Therefore, maximizing evanescent waves to activate photocatalysts by controlling photocatalyst coating structures emerges as an effective strategy to improve light usage in photocatalysis.

Concepts for structured illumination microscopy with extended axial resolution through mirrored illumination

Wide-field fluorescence microscopy, while much faster than confocal microscopy, suffers from a lack of optical sectioning and poor axial resolution. 3D structured illumination microscopy (SIM) has been demonstrated to provide optical sectioning and to double the resolution limit both laterally and axially, but even with this the axial resolution is still worse than the lateral resolution of unmodified wide-field microscopy. Interferometric schemes using two high numerical aperture objectives, such as 4Pi confocal and I⁵M microscopy, have improved the axial resolution beyond that of the lateral, but at the cost of a significantly more complex optical setup. Here, we theoretically and numerically investigate a simpler dual-objective scheme which we propose can be easily added to an existing 3D-SIM microscope, providing lateral and axial resolutions in excess of 125 nm with conventional fluorophores and without the need for interferometric detection.

Hybrid representations of asymmetrically excited surface plasmon self-interference at a planar dielectric/metal interface

We introduce a hybrid representation to describe asymmetrically excited surface plasmon (SP) self-interference at a planar dielectric/metal interface. The hybrid representation combines a ray model, angular spectrum representation, near-field spatial frequency analysis, and parameter characterization to investigate the incidence coupling and spatial resolution degradation of the SP self-interference. We also propose SP numerical aperture for self-interference virtual probe imaging. We explain the shift in the main peak in asymmetrical excitation. Individual models are used to study the various characteristic features in detail, and physical insights are gained. We examine the consistency of the results obtained using the different models and demonstrate the effectiveness of the hybrid representation for describing the asymmetrically excited SP self-interference.

Fast and robust phase-shift estimation in two-dimensional structured illumination microscopy

A method of determining unknown phase-shifts between elementary images in two-dimensional Structured Illumination Microscopy (2D-SIM) is presented. The proposed method is based on the comparison of the peak intensity of spectral components. These components correspond to the inherent structured illumination spectral content and the residual component that appears from wrongly estimated phase-shifts. The estimation of the phase-shifts is carried out by finding the absolute maximum of a function defined as the normalized peak intensity difference in the Fourier domain. This task is performed by an optimization method providing a fast estimation of the phase-shift. The algorithm stability and robustness are tested for various levels of noise and contrasts of the structured illumination pattern. Furthermore, the proposed approach reduces the number of computations compared to other existing techniques. The method is supported by the theoretical calculations and validated by means of simulated and experimental results.

Low-loss metal-dielectric waveguide mode enabled structured illumination microscopy with 0.18λ0 resolution

Structured illumination microscopy (SIM) is a powerful super-resolved imaging technique which enables to perform fast and in vivo imaging of bio-samples. In order to achieve a better resolution of a SIM system, evanescent waves with larger in-plane wave-vector are preferred for SIM, among which the total internal reflection (TIRF-SIM) and the plasmonic SIM (pSIM) configurations are widely studied. Here, we demonstrated a metal-dielectric waveguide (MDW) based SIM system - termed as MDW-SIM, which can achieve a good compromise between TIRF-SIM and pSIM. The MDW can support a low-loss waveguide mode at an aqueous environment, with an evanescent tail existing above the water/dielectric interface for SIM. A proof-of-concept imaging experiment was performed on fluorescent beads, where a spatial resolution of 86nm was achieved at a 473nm illumination wavelength and a 1.45 numerical aperture objective lens. The proposed MDW-SIM has a great potential for the bio-imaging applications.

Multi-color live-cell super-resolution volume imaging with multi-angle interference microscopy

Imaging and tracking of near-surface three-dimensional volumetric nanoscale dynamic processes of live cells remains a challenging problem. In this paper, we propose a multi-color live-cell near-surface-volume super-resolution microscopy method that combines total internal reflection fluorescence structured illumination microscopy with multi-angle evanescent light illumination. We demonstrate that our approach of multi-angle interference microscopy is perfectly adapted to studying subcellular dynamics of mitochondria and microtubule architectures during cell migration.

3D super-resolution imaging of dynamic processes in live cells is still challenging, especially in a large field of view. Here the authors combine SIM with multi-angle evanescent light illumination and achieve improved lateral and axial resolution, with stack acquisition time in the range of 1–2 s.

Inverse matrix based phase estimation algorithm for structured illumination microscopy

The fast imaging speed and low-intensity requirement of structured illumination microscopy (SIM) have made it one of the most widely used imaging tools in live cell imaging. In order to obtain a high fidelity reconstructed image, a precise estimation of the phase of the illumination pattern is required, especially in those structured illumination based techniques that rely on high-order harmonics to improve the resolution. This can be achieved in one of two fundamental ways. The first is to build a high-end control system capable of shifting a sinusoidal pattern with high precision, while the second is to apply estimation algorithms to determine how patterns shift during post-processing. The latter method is preferred in low-cost super-resolution imaging systems; however, existing algorithms are either time-consuming or fail due to noise and a low modulation depth. In this paper, we introduce additional matrixes into the phase estimation algorithm and propose an inverse matrix based phase estimation method with which analytical solutions of the phases can be determined without iteration. The proposed algorithm was validated via simulation and experiments using a home-made total internal reflection fluorescent SIM system (TIRF-SIM). When tested, the method obtained the true phase even when the modulation depth was low. The source code is now available for download by researchers and others.

Paraxial models for the surface plasmon self- interference at off-axis excitation

The surface plasmon self-interference excited by a strongly focused, linearly polarized vortex beam at off-axis illumination in a paraxial regime is analytically studied. The off-axis excitation is investigated using a geometrical model. The combination of an angular spectrum representation and homogeneous transformation is applied to derive the integral expressions of the surface plasmon polariton fields for off-axis directions both parallel and perpendicular to polarization plane, and an off-axis convergence angle is used to compute the integral. The surface plasmon excitation is represented by the relative peak intensity of the longitudinal field, while its standing wave is characterized by the full width at half-maximum of the transmitted field intensity distribution profile. Both models consistently show that even in ideal Gaussian microscopic imaging systems, self-interference degradation exists. When the off-axis angle increases, the surface plasmon interference disappears and the fields detune out of surface plasmon resonance.

Super-Resolution Imaging and Plasmonics

This review describes the growing partnership between super-resolution imaging and plasmonics, by describing the various ways in which the two topics mutually benefit one another to enhance our understanding of the nanoscale world. First, localization-based super-resolution imaging strategies, where molecules are modulated between emissive and nonemissive states and their emission localized, are applied to plasmonic nanoparticle substrates, revealing the hidden shape of the nanoparticles while also mapping local electromagnetic field enhancements and reactivity patterns on their surface. However, these results must be interpreted carefully due to localization errors induced by the interaction between metallic substrates and single fluorophores. Second, plasmonic nanoparticles are explored as image contrast agents for both superlocalization and super-resolution imaging, offering benefits such as high photostability, large signal-to-noise, and distance-dependent spectral features but presenting challenges for localizing individual nanoparticles within a diffraction-limited spot. Finally, the use of plasmon-tailored excitation fields to achieve subdiffraction-limited spatial resolution is discussed, using localized surface plasmons and surface plasmon polaritons to create confined excitation volumes or image magnification to enhance spatial resolution.

Clearer view for TIRF and oblique illumination microscopy

In Total Internal Reflection Fluorescence (TIRF) microscopy, the sample is illuminated with an evanescent field that yields a thin optical section. However, its widefield detection has no rejection mechanism against out-of-focus blur from scattered light that can compromise TIRF images. Here I demonstrate that via structured illumination, out-of-focus blur can be effectively suppressed in TIRF microscopy, yielding strikingly clearer images. The same mechanism can also be applied to oblique illumination schemes that extend the reach of TIRF microscopy beyond the basal surface of the cell. The two imaging modes are used to image a biosensor, clathrin coated vesicles and the actin cytoskeleton in different cell types with improved contrast.

Adaptive illumination reduces photobleaching in structured illumination microscopy

Photobleaching is a major factor limiting the observation time in fluorescence microscopy. We achieve photobleaching reduction in structured illumination microscopy (SIM) by locally adjusting the illumination intensities according to the sample. Adaptive SIM is enabled by a digital micro-mirror device (DMD), which provides a projection of the grayscale illumination patterns. We demonstrate a reduction in photobleaching by a factor of three in adaptive SIM compared to the non-adaptive SIM based on a spot grid scanning approach. Our proof-of-principle experiments show great potential for DMD-based microscopes to become a more useful tool in live-cell SIM imaging.

Double moiré structured illumination microscopy with high-index materials

Structured illumination microscopy utilizes illumination of periodic light patterns to allow reconstruction of high spatial frequencies, conventionally doubling the microscope's resolving power. This Letter presents a structured illumination microscopy scheme with the ability to achieve 60 nm resolution by using total internal reflection of a double moiré pattern in high-index materials. We propose a realization that provides dynamic control over relative amplitudes and phases of four coherently interfering beams in gallium phosphide and numerically demonstrate its capability.

Deconvolution methods for structured illumination microscopy

We compare two recently developed multiple-frame deconvolution approaches for the reconstruction of structured illumination microscopy (SIM) data: the pattern-illuminated Fourier ptychography algorithm (piFP) and the joint Richardson-Lucy deconvolution (jRL). The quality of the images reconstructed by these methods is compared in terms of the achieved resolution improvement, noise enhancement, and inherent artifacts. Furthermore, we study the issue of object-dependent resolution improvement by considering the modulation transfer functions derived from different types of objects. The performance of the considered methods is tested in experiments and benchmarked with a commercial SIM microscope. We find that the piFP method resolves periodic and isolated structures equally well, whereas the jRL method provides significantly higher resolution for isolated objects compared to periodic ones. Images reconstructed by the piFP and jRL algorithms are comparable to the images reconstructed using the generalized Wiener filter applied in most commercial SIM microscopes. An advantage of the discussed algorithms is that they allow the reconstruction of SIM images acquired under different types of illumination, such as multi-spot or random illumination.

A Guide to Structured Illumination TIRF Microscopy at High Speed with Multiple Colors

Optical super-resolution imaging with structured illumination microscopy (SIM) is a key technology for the visualization of processes at the molecular level in the chemical and biomedical sciences. Although commercial SIM systems are available, systems that are custom designed in the laboratory can outperform commercial systems, the latter typically designed for ease of use and general purpose applications, both in terms of imaging fidelity and speed. This article presents an in-depth guide to building a SIM system that uses total internal reflection (TIR) illumination and is capable of imaging at up to 10 Hz in three colors at a resolution reaching 100 nm. Due to the combination of SIM and TIRF, the system provides better image contrast than rival technologies. To achieve these specifications, several optical elements are used to enable automated control over the polarization state and spatial structure of the illumination light for all available excitation wavelengths. Full details on hardware implementation and control are given to achieve synchronization between excitation light pattern generation, wavelength, polarization state, and camera control with an emphasis on achieving maximum acquisition frame rate. A step-by-step protocol for system alignment and calibration is presented and the achievable resolution improvement is validated on ideal test samples. The capability for video-rate super-resolution imaging is demonstrated with living cells.

Far-field super-resolution imaging of resonant multiples

We demonstrate for the first time that seismic resonant multiples, usually considered as noise, can be used for super-resolution imaging in the far-field region of sources and receivers. Tests with both synthetic data and field data show that resonant multiples can image reflector boundaries with resolutions more than twice the classical resolution limit. Resolution increases with the order of the resonant multiples. This procedure has important applications in earthquake and exploration seismology, radar, sonar, LIDAR (light detection and ranging), and ultrasound imaging, where the multiples can be used to make high-resolution images.

Studying different illumination patterns for resolution improvement in fluorescence microscopy

Various types of non-uniform illumination can be used for resolution improvement in fluorescence microscopy. Here we study the differences between several types of incoherent illumination patterns, such as multi-spot, line and pseudo-random patterns. This requires an imaging setup and an image reconstruction algorithm that are flexible enough to incorporate any type of illumination pattern. We employ fluorescence microscope with structured illumination generated by a Digital Micro-mirror Device (DMD) and the pattern-illuminated Fourier Ptychography reconstruction algorithm (piFP) to this end. The piFP method is modified and improved by identifying the algorithm as steepest descent optimization of a least squares function. We find that illumination patterns with regular structure are superior to those with irregular structure in terms of resolution enhancement and noise level in the reconstructed images.

Differences in nuclear DNA organization between lymphocytes, Hodgkin and Reed-Sternberg cells revealed by structured illumination microscopy

Advances in light microscopy have enabled the visualization of DNA in the interphase nucleus with more detail than is visible with conventional light microscopy. The nuclear architecture is assumed to be different in cancer cells compared to normal cells. In this paper we have studied, for the first time, the organization of nuclear DNA and that of DNA-free space in control lymphocytes, Hodgkin cells and Reed–Sternberg cells using 3D structured illumination microscopy (SIM). We have observed detail in these SIM images that was not observed in conventional widefield images. We have measured the size distribution of the DNA structure using granulometry and noted a significant, progressive increase in the amount of sub-micron structures from control lymphocytes to Hodgkin cells to Reed–Sternberg cells. The DNA-free space changes as well; “holes” in the DNA distribution start to appear in the malignant cells. We have studied whether these “holes” are nucleoli by staining for upstream binding factor (UBF), a protein associated with the nucleolus. We have found that the relative UBF content progressively and significantly decreases—or is absent—in the DNA-free space when measured as either the Pearson correlation coefficient with the DNA-free space or as the number of “holes” that contain UBF. Similar differences exist within the population of Reed–Sternberg cells between binucleated and multinucleated cells with four or more subnuclei. To our knowledge, this is the first study that investigates the changes of the nuclear DNA structure in any disease with superresolution light microscopy. J. Cell. Biochem. 115: 1441–1448, 2014. © 2014 The Authors. Journal of Cellular Biochemistry published by Wiley Periodicals, Inc. This is an open access article under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non-commercial and no modifications or adaptations are made.

Three-dimensional structured illumination microscopy using Lukosz bound apodization reduces pixel negativity at no resolution cost

The quality of the reconstructed image in structured illumination microscopy (SIM) depends on various aspects of the image filtering process. To optimize the trade-off between resolution and ringing artifacts, which lead to negative intensities, we extend Lukosz-bound filtering to 3D SIM and derive the parametrization of the 3D SIM cut-off. We compare the use of the Lukosz-bound as apodization filter to triangular apodization and find a tenfold reduction in the most negative pixel value with a minimal resolution loss. We test this algorithm on experimental SIM images of tubulin filaments and DAPI stained DNA structure in cancer cells and find a substantial reduction in the most negative pixel value and the percentage of pixels with a negative value. This means that there is no longer a need to clip the final image to avoid these negative pixel values.

Full-field dual-color 100-nm super-resolution imaging reveals organization and dynamics of mitochondrial and ER networks

Most structured illumination microscopes use a physical or synthetic grating that is projected into the sample plane to generate a periodic illumination pattern. Albeit simple and cost-effective, this arrangement hampers fast or multi-color acquisition, which is a critical requirement for time-lapse imaging of cellular and sub-cellular dynamics. In this study, we designed and implemented an interferometric approach allowing large-field, fast, dual-color imaging at an isotropic 100-nm resolution based on a sub-diffraction fringe pattern generated by the interference of two colliding evanescent waves. Our all-mirror-based system generates illumination pat-terns of arbitrary orientation and period, limited only by the illumination aperture (NA = 1.45), the response time of a fast, piezo-driven tip-tilt mirror (10 ms) and the available fluorescence signal. At low µW laser powers suitable for long-period observation of life cells and with a camera exposure time of 20 ms, our system permits the acquisition of super-resolved 50 µm by 50 µm images at 3.3 Hz. The possibility it offers for rapidly adjusting the pattern between images is particularly advantageous for experiments that require multi-scale and multi-color information. We demonstrate the performance of our instrument by imaging mitochondrial dynamics in cultured cortical astrocytes. As an illustration of dual-color excitation dual-color detection, we also resolve interaction sites between near-membrane mitochondria and the endoplasmic reticulum. Our TIRF-SIM microscope provides a versatile, compact and cost-effective arrangement for super-resolution imaging, allowing the investigation of co-localization and dynamic interactions between organelles--important questions in both cell biology and neurophysiology.

Image filtering in structured illumination microscopy using the Lukosz bound

Various aspects of image filtering affect the final image quality in Structured Illumination Microscopy, in particular the regularization parameter and type of regularization function, the relative height of the side bands, and the shape of the apodization function. We propose an apodization filter without adjustable parameters based on the application of the Lukosz bound in order to guarantee a non-negative point spread function. Simulations of digital resolution charts and experimental data of chromatin structures and of actin filaments show artefact free reconstructions for a wide range of filter parameters. In general, a trade-off is observed between sharpness and noise suppression.

Theoretical analysis of obliquely excited surface plasmon self-interference

We present the theoretical analysis of surface plasmon polaritons induced by a tightly focused light beam at oblique incidence. Firstly, we propose a geometrical model to explain the evolution of SPPs effect as light deviating from normal incidence, and introduce a concept of critical oblique angle (θ(co)) which is one of the key factors affecting the stability, efficiency and lateral resolution of SPPs. Secondly, the integral expressions for the transmitted SPP field excited by a linearly polarized vortex beam are derived, using angular spectrum representation and rotation matrix trans-formation, for the oblique directions as parallel and perpendicular to polarization plane. An interesting finding is that the system completely goes out of SPP self-interference resonance at an incident angle smaller than θ(co) at parallel obliquity, while larger than θ(co) at perpendicular obliquity.

Doppler encoded excitation pattern tomographic optical microscopy

Most far-field optical imaging systems rely on lenses and spatially resolved detection to probe distinct locations on the object. We describe and demonstrate a high-speed wide-field approach to imaging that instead measures the complex spatial Fourier transform of the object by detecting its spatially integrated response to dynamic acousto-optically synthesized structured illumination. Tomographic filtered backprojection is applied to reconstruct the object in two or three dimensions. This technique decouples depth of field and working distance from resolution, in contrast to conventional imaging, and can be used to image biological and synthetic structures in fluoresced or scattered light employing coherent or broadband illumination. We discuss the electronically programmable transfer function of the optical system and its implications for imaging dynamic processes. We also explore wide-field fluorescence imaging in scattering media by coherence gating. Finally, we present two-dimensional high-resolution tomographic image reconstructions in both scattered and fluoresced light demonstrating a thousandfold improvement in the depth of field compared to conventional lens-based microscopy.

Lateral superresolution using a posteriori phase shift estimation for a moving object: experimental results

Structured illumination imaging uses multiple images of an object having different phase shifts in the sinusoidally patterned illumination to obtain lateral superresolution in stationary specimens in microscopy. In our recent work we have discussed a method to estimate these phase shifts a posteriori, allowing us to apply this technique to non-stationary objects such as in vivo tissue. Here we show experimental verification of our earlier simulations for phase shift estimation a posteriori. We estimated phase shifts in fluorescence microscopy images for an object having unknown, random translational motion and used them to obtain an artifact-free reconstruction having the expected superresolution.

High-resolution total-internal-reflection fluorescence microscopy using periodically nanostructured glass slides

We compare the performance of a total-internal-reflection fluorescence microscope under varying illumination and substrate conditions. The samples are deposited on a standard homogeneous glass slide or on a grating and illuminated by one or two interfering beams at various incident angles. A conjugate gradient with positivity a priori information is used to reconstruct the fluorophore density from the images. Numerical studies demonstrate that when the sample lies on an optimized grating, the lateral resolution of the microscope is greatly improved, up to fourfold, the best result being obtained when the grating is illuminated by two interfering beams.

Limits for reduction of effective focal volume in multiple-beam light microscopy

Employing interference patterns for illumination has been shown to reduce the focal volume in fluorescence microscopy. For example, the 4Pi technique employs two interfering laser beams and significantly decreases the focal volume, as compared to conventional microscopy. We study theoretically the effect of using multiple interfering laser beams on the focal volume. In realistic setups with three or four beams, the focal volume is about half of that from the 4Pi case. This improvement reaches a limit quickly as more beams are added, and for the idealized case of an infinite number of beams the focal volume is rather close to the three- or four-beam cases. Thus, our study suggests a limit for the possible reduction of the focal volume in a purely optical far-field setup.

Phase-shift estimation in sinusoidally illuminated images for lateral superresolution

Sinusoidally patterned illumination has been used to obtain lateral superresolution and axial sectioning in images. In both of these techniques multiple images are taken with the object illuminated by a sinusoidal pattern, the phase of the sinusoidal illumination being shifted differently in each image. The knowledge of these phase shifts is critical for image reconstruction. We discuss a method to estimate this phase shift with no prior knowledge of the shifts. In postprocessing we estimate randomly introduced, unknown phase shifts and process the images to obtain a superresolved image. Results of computer simulations are shown.

Optical resolution below lambda/4 using synthetic aperture microscopy and evanescent-wave illumination

Evanescent-wave illumination is applied to synthetic-aperture microscopy on a transparent solid substrate to extend the resolution limit to lambda/2(n+1) (where n is the substrate refractive index) independent of the lens NA. Using a 633 nm source and a 0.4 NA lens, a resolution to 150 nm (lambda/4.2) is demonstrated on a glass (n = 1.5) substrate. Further extension to approximately 74-nm resolution (lambda/8.6) is projected with a higher index substrate (n = 3.3).

Analysis of surface plasmon interference pattern formed by optical vortex beams

Following our recent experimental approach to excitation of surface plasmon polaritons induced by optical vortex beams [5], we report further analysis and verification of the surface plasmon interference pattern formed by locally excited standing surface plasmon polaritons in a metal/dielectric film. Our simulation model can be demonstrated by using angular spectrum representation. The generated standing interference pattern has potential as a resolution enhancement technique for sub-diffraction imaging.

Structured illumination in total internal reflection fluorescence microscopy using a spatial light modulator

In wide-field fluorescence microscopy, illuminating the specimen with evanescent standing waves increases lateral resolution more than twofold. We report a versatile setup for standing-wave illumination in total internal reflection fluorescence microscopy. An adjustable diffraction grating written on a phase-only spatial light modulator controls the illumination field. Selecting appropriate diffraction orders and displaying a sheared (tilted) diffraction grating allows one to tune the penetration depth in very fine steps. The setup achieves 91 nm lateral resolution for green emission.

Effects of inhomogeneous fields in superresolving structured-illumination microscopy

The increased resolution attained by structured illumination is based on the degree to which high spatial frequencies can be down converted into the passband of the imaging system. To effectively do this, a high contrast high-frequency illumination pattern is required. We show how the use of high numerical aperture (1.42 NA and 1.65 NA) microscope objectives in structured-illumination microscopy can provide relatively high-frequency illumination patterns. However, a consequence of this is that the resulting illumination pattern can become evanescently decaying and thus becomes inhomogeneous within a microscopically extended sample medium. We demonstrate how these inhomogeneous fields impact the superresolved imaging of the microscope and how these adverse effects can be avoided.