Article
Optics
Mary Grace M. Velasco, Mengyang Zhang, Jacopo Antonello, Peng Yuan, Edward S. Allgeyer, Dennis May, Ons M'Saad, Phylicia Kidd, Andrew E. S. Barentine, Valentina Greco, Jaime Grutzendler, Martin J. Booth, Joerg Bewersdorf
Summary: STED microscopy allows for three-dimensional visualization of dynamic nanoscale structures in living cells, but imaging deep inside biological tissue faces challenges. Researchers have developed a STED system that overcomes these challenges by combining various technologies to achieve deep aberration-corrected three-dimensional super-resolution imaging.
Article
Nanoscience & Nanotechnology
Vytautas Navikas, Adrien C. Descloux, Kristin S. Grussmayer, Sanjin Marion, Aleksandra Radenovic
Summary: Modern super-resolution microscopy techniques offer unprecedented imaging opportunities for biological samples at a molecular resolution, but imaging at large depths remains a challenge. The adaptive optics approach allows wavefront control and engineering of the PSF shape, enabling precise positioning within micrometer range, opening up new possibilities for super-resolution microscopy.
Editorial Material
Biology
Maximilian T. Strauss
Summary: Picasso-server is a server interface that combines algorithms, workflow management system, and database for processing high-content super-resolution data. It utilizes community-tested algorithms to achieve production-grade processing capability.
COMMUNICATIONS BIOLOGY
(2022)
Review
Chemistry, Physical
Oleksii Nevskyi, Dominik Woell
Summary: This review discusses the application of super-resolution fluorescence microscopy techniques in nano- and microparticles hydrogels, known as nano- or microgels. It summarizes the progress in studying the morphology, internal structure, dynamics, and diffusion of microgels. The ability to super-resolve structures in three dimensions has greatly advanced the research field and allowed impressive 3D imaging of deformed microgels.
ANNUAL REVIEW OF PHYSICAL CHEMISTRY
(2023)
Article
Acoustics
Martin Lind Ommen, Mikkel Schou, Christopher Beers, Jorgen Arendt Jensen, Niels Bent Larsen, Erik Vilain Thomsen
Summary: This study evaluates the use of 3D printed phantoms for calibration of 3D super-resolution ultrasound imaging algorithms. By accurately positioning sub-wavelength sized ultrasound scatterers in a material with properties similar to tissue, the method demonstrates the potential for precise calibration and evaluation of volumetric super-resolution algorithms.
Article
Multidisciplinary Sciences
Yicong Wu, Xiaofei Han, Yijun Su, Melissa Glidewell, Jonathan S. Daniels, Jiamin Liu, Titas Sengupta, Ivan Rey-Suarez, Robert Fischer, Akshay Patel, Christian Combs, Junhui Sun, Xufeng Wu, Ryan Christensen, Corey Smith, Lingyu Bao, Yilun Sun, Leighton H. Duncan, Jiji Chen, Yves Pommier, Yun-Bo Shi, Elizabeth Murphy, Sougata Roy, Arpita Upadhyaya, Daniel Colon-Ramos, Patrick La Riviere, Hari Shroff
Summary: Researchers have enhanced the performance of confocal microscopy using four approaches: developing compact line scanners, combining multi-view imaging, adapting techniques from structured illumination microscopy, and utilizing deep learning. They successfully improved imaging resolution, reduced phototoxicity, and demonstrated these advancements on over 20 different samples.
Article
Chemistry, Multidisciplinary
Anish R. Roy, Wei Zhang, Zeinab Jahed, Ching-Ting Tsai, Bianxiao Cui, W. E. Moerner
Summary: The topography of the plasma membrane has a strong influence on cellular processes. Recent studies have used 3D nanostructures to study the effects of membrane curvature on protein distribution. In this study, a method combining silicone-oil immersion objective and 3D double-helix point spread function microscopy is introduced to investigate the nanoscale distribution of proteins at the nano-bio interface.
Review
Physics, Multidisciplinary
Tian Zhao, Kenneth L. Knappenberger
Summary: Recent advances in bridging the mismatching length scales of optical spectroscopy and imaging have been described in this review. Spectroscopic measurements covering ultraviolet to infrared wavelengths provide rich details about the structural properties of molecules and materials, but the diffraction limit hinders spatial resolution for imaging these systems. Multiple groups have innovated statistical approaches to determine an optical point source with precision approaching the molecular length scale.
ADVANCES IN PHYSICS-X
(2021)
Article
Multidisciplinary Sciences
Vytautas Navikas, Samuel M. Leitao, Kristin S. Grussmayer, Adrien Descloux, Barney Drake, Klaus Yserentant, Philipp Werther, Dirk-Peter Herten, Richard Wombacher, Aleksandra Radenovic, Georg E. Fantner
Summary: The combination of scanning ion conductance microscopy (SICM) and live-cell super-resolution optical fluctuation imaging (SOFI) is introduced for non-invasive topographical imaging of soft biological samples, preserving high axial resolution. This method allows for the visualization of cellular structures in 3D with high resolution while maintaining the integrity of fragile membrane samples.
NATURE COMMUNICATIONS
(2021)
Article
Optics
Hongfei Zhu, Yile Sun, Lu Yin, Jiaxiao Han, Mingxuan Cai, Qiulan Liu, Cuifang Kuang, Xiang Hao, Xu Liu
Summary: Three-dimensional structured illumination microscopy (3D-SIM) achieves higher resolution and fidelity imaging results through a novel iterative algorithm, further improving performance and reducing the demand for raw data.
Article
Multidisciplinary Sciences
Chenxi Qian, Kun Miao, Li-En Lin, Xinhong Chen, Jiajun Du, Lu Wei
Summary: VISTA is a label-free superresolution method combining sample expansion and vibrational imaging, enabling high-resolution interrogation of protein-rich biological structures in cells and tissues, with a resolution down to 78 nm.
NATURE COMMUNICATIONS
(2021)
Article
Biochemical Research Methods
Romain F. Laine, Hannah S. Heil, Simao Coelho, Jonathon Nixon-Abell, Angelique Jimenez, Theresa Wiesner, Damian Martinez, Tommaso Galgani, Louise Regnier, Aki Stubb, Gautier Follain, Samantha Webster, Jesse Goyette, Aurelien Dauphin, Audrey Salles, Sian Culley, Guillaume Jacquemet, Bassam Hajj, Christophe Leterrier, Ricardo Henriques
Summary: This article presents an enhanced super-resolution radial fluctuations (eSRRF) method that improves image fidelity and resolution. The method incorporates automated parameter optimization and has been validated across various imaging modalities and biological systems. Additionally, eSRRF has been extended to three dimensions by combining it with multifocus microscopy, enabling live-cell volumetric super-resolution imaging.
Review
Optics
Mingwei Tang, Yubing Han, Danchen Jia, Qing Yang, Ji-Xin Cheng
Summary: Far-field chemical microscopy, with molecular electronic or vibrational fingerprint information, offers a new perspective for studying three-dimensional biological, material, and chemical systems. Despite the limitation of optics, recent advances in super-resolution techniques have overcome this hurdle, pushing the boundaries of far-field chemical microscopy in terms of spatial resolution. This technique finds applications in various fields including biomedical research, material characterization, environmental study, cultural heritage conservation, and integrated chip inspection.
LIGHT-SCIENCE & APPLICATIONS
(2023)
Article
Biochemical Research Methods
Linjing Fang, Fred Monroe, Sammy Weiser Novak, Lyndsey Kirk, Cara R. Schiavon, Seungyoon B. Yu, Tong Zhang, Melissa Wu, Kyle Kastner, Alaa Abdel Latif, Zijun Lin, Andrew Shaw, Yoshiyuki Kubota, John Mendenhall, Zhao Zhang, Gulcin Pekkurnaz, Kristen Harris, Jeremy Howard, Uri Manor
Summary: Point-scanning imaging systems are widely used for high-resolution cellular and tissue imaging, but optimizing resolution, speed, sample preservation, and signal-to-noise ratio simultaneously is challenging. The use of deep learning-based supersampling, known as point-scanning super-resolution (PSSR) imaging, can mitigate these limitations. PSSR facilitates high-resolution, fast, and sensitive image acquisition with otherwise unattainable resolution.
Article
Biochemical Research Methods
Yichen Li, Mark Tingey, Andrew Ruba, Weidong Yang
Summary: SPEED microscopy offers an effective approach to achieve 3D sub-diffraction-limit information in subcellular structures and organelles with rotational symmetry. It does not rely on complex optical components and can be implemented onto a standard inverted epifluorescence microscope, providing high spatiotemporal resolution for studying individual immobile or moving fluorescent molecules inside biological channels or cavities. The complete protocol takes around 9 days to complete, including cell culture and sample preparation, SPEED imaging, and data analysis and validation through simulation.
Article
Cell Biology
Hannah S. Heil, Max Aigner, Sophia Maier, Prateek Gupta, Luise M. C. Evers, Vanessa Gob, Charly Kusch, Mara Meub, Bernhard Nieswandt, David Stegner, Katrin G. Heinze
Summary: This study utilized expansion microscopy combined with confocal microscopy to analyze the organization of platelet receptors, revealing the presence of αIIbβ3 clusters in both resting and activated platelets, which contribute to rapid platelet response.
Article
Multidisciplinary Sciences
Aldrik H. Velders, Michel Ossendrijver, Bart J. F. Keijser, Vittorio Saggiomo
Summary: A solution to the bottlenecks of centralized testing during the pandemic is presented, with a cheap and easy-to-produce noninstrumental device for at-home SARS-CoV2 RNA detection. This device, capable of maintaining isothermal conditions for LAMP tests, has minimal environmental impact and can be deployed on a large scale in a short amount of time.
Review
Biotechnology & Applied Microbiology
Etienne Boulter, Julien Colombelli, Ricardo Henriques, Chloe C. Feral
Summary: LEGO (R) is not just a toy for children, but also a building ecosystem that can be used for designing and assembling various devices for scientific research and biotechnology. This emerging trend in LEGO (R) building pairs with a growing interest in open-access and frugal science.
TRENDS IN BIOTECHNOLOGY
(2022)
Article
Immunology
David Tomaz, Pedro Matos Pereira, Nadia Guerra, Julian Dyson, Keith Gould, Ricardo Henriques
Summary: NK cell inhibition and activation rely on the nanoscale colocalization of their receptors. NKG2D and Ly49A integrate signals at the immune synapse based on their relative positioning, which is affected by the size of NK cell ligand-receptor pairs.
FRONTIERS IN IMMUNOLOGY
(2022)
Review
Biochemistry & Molecular Biology
Afonso Mendes, Hannah S. Heil, Simao Coelho, Christophe Leterrier, Ricardo Henriques
Summary: Understanding the structure of supramolecular complexes is important for studying their function and disease modulation. Super-resolution microscopy combined with single-particle analysis overcomes technical limitations and provides detailed structural information, broadening our knowledge.
Article
Biology
Christoph Spahn, Estibaliz Gomez-de-Mariscal, Romain F. Laine, Pedro M. Pereira, Lucas von Chamier, Mia Conduit, Mariana G. Pinho, Guillaume Jacquemet, Seamus Holden, Mike Heilemann, Ricardo Henriques
Summary: This work demonstrates the use of state-of-the-art artificial neural networks in analyzing bacterial microscopy images. It provides strategies for data acquisition, curation, and model training, and showcases the capabilities of deep learning in tasks such as image segmentation, growth stage classification, phenotypic profiling, and image denoising. The creation of a purposefully-built database aids novice users in quickly exploring data analysis through deep learning.
COMMUNICATIONS BIOLOGY
(2022)
Article
Cell Biology
Joanna W. Pylvanainen, Romain F. Laine, Bruno M. S. Saraiva, Sujan Ghimire, Gautier Follain, Ricardo Henriques, Guillaume Jacquemet
Summary: Fast4DReg is a new tool developed for ImageJ or Fiji that can quickly correct axial and lateral drift in 3D video-microscopy datasets. It outperforms other state-of-the-art open-source drift-correction tools in terms of speed and accuracy, and can be used to register misaligned channels in 3D.
JOURNAL OF CELL SCIENCE
(2023)
Article
Chemistry, Multidisciplinary
Daria Aristova, Roman Selin, Hannah Sophie Heil, Viktoriia Kosach, Yuriy Slominsky, Sergiy Yarmoluk, Vasyl Pekhnyo, Vladyslava Kovalska, Ricardo Henriques, Andriy Mokhir, Svitlana Chernii
Summary: In this study, symmetrical cationic trimethine cyanine dyes with ss-substituents were proposed as probes for detecting and visualizing live and fixed cells by fluorescence microscopy. The dyes showed increased emission intensity in the presence of nucleic acids and were found to bind to nucleic acids through various interaction mechanisms. The dyes were able to stain cell components, including nuclei and certain organelle structures, with different levels of specificity. The benzoxazole dye T-5 showed selective staining of structures associated with mitochondria or lysosomes and could be used as an alternative to commercial dyes for mitochondria staining.
Article
Engineering, Electrical & Electronic
Marco Ponzetti, Ganga Chinna Rao Devarapu, Nadia Rucci, Armando Carlone, Vittorio Saggiomo
Summary: This study proposes a modification of the open-source 3D printer Creality Ender-3 to create an inexpensive and easy-to-set-up automated microscope slide autostainer called HistoEnder. The HistoEnder can automate laboratory procedures, saving working hours, and can also be used in chemistry and material science laboratories.
Article
Materials Science, Biomaterials
Laura M. Schijven, Thomas D. Vogelaar, Simha Sridharan, Vittorio Saggiomo, Aldrik H. Velders, Johannes H. Bitter, Constantinos Nikiforidis
Summary: In this study, hollow microparticles (MPs) were formed by assembling lipoproteins in CaCO3 templates. The proteins interacted in the pores of the templates through hydrophobic forces, forming dense edges of the hollow MPs. Addition of Au3+ initiated a redox reaction that cross-linked the proteins, while forming gold nanoparticles (AuNPs). The resulting protein-based hollow MPs had a diameter of 6 μm and AuNPs embedded on their surface. This research suggests a new route for designing biobased Au-protein hollow MPs, enabling new possibilities for carrying functional molecules and bioimaging.
JOURNAL OF MATERIALS CHEMISTRY B
(2022)
