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Mendes A, Heil HS, Coelho S, Leterrier C, Henriques R. Mapping molecular complexes with super-resolution microscopy and single-particle analysis. Open Biol 2022; 12:220079. [PMID: 35892200 PMCID: PMC9326279 DOI: 10.1098/rsob.220079] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
Understanding the structure of supramolecular complexes provides insight into their functional capabilities and how they can be modulated in the context of disease. Super-resolution microscopy (SRM) excels in performing this task by resolving ultrastructural details at the nanoscale with molecular specificity. However, technical limitations, such as underlabelling, preclude its ability to provide complete structures. Single-particle analysis (SPA) overcomes this limitation by combining information from multiple images of identical structures and producing an averaged model, effectively enhancing the resolution and coverage of image reconstructions. This review highlights important studies using SRM-SPA, demonstrating how it broadens our knowledge by elucidating features of key biological structures with unprecedented detail.
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Affiliation(s)
| | | | - Simao Coelho
- Instituto Gulbenkian de Ciência, Oeiras, Portugal
| | | | - Ricardo Henriques
- Instituto Gulbenkian de Ciência, Oeiras, Portugal,MRC Laboratory for Molecular Cell Biology, University College London, London, UK
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Thiele JC, Jungblut M, Helmerich DA, Tsukanov R, Chizhik A, Chizhik AI, Schnermann MJ, Sauer M, Nevskyi O, Enderlein J. Isotropic three-dimensional dual-color super-resolution microscopy with metal-induced energy transfer. SCIENCE ADVANCES 2022; 8:eabo2506. [PMID: 35675401 PMCID: PMC9176750 DOI: 10.1126/sciadv.abo2506] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2022] [Accepted: 04/25/2022] [Indexed: 05/25/2023]
Abstract
Over the past two decades, super-resolution microscopy has seen a tremendous development in speed and resolution, but for most of its methods, there exists a remarkable gap between lateral and axial resolution, which is by a factor of 2 to 3 worse. One recently developed method to close this gap is metal-induced energy transfer (MIET) imaging, which achieves an axial resolution down to nanometers. It exploits the distance-dependent quenching of fluorescence when a fluorescent molecule is brought close to a metal surface. In the present manuscript, we combine the extreme axial resolution of MIET imaging with the extraordinary lateral resolution of single-molecule localization microscopy, in particular with direct stochastic optical reconstruction microscopy (dSTORM). This combination allows us to achieve isotropic three-dimensional super-resolution imaging of subcellular structures. Moreover, we used spectral demixing for implementing dual-color MIET-dSTORM that allows us to image and colocalize, in three dimensions, two different cellular structures simultaneously.
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Affiliation(s)
- Jan Christoph Thiele
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Marvin Jungblut
- Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Dominic A. Helmerich
- Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Roman Tsukanov
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Anna Chizhik
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Alexey I. Chizhik
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Martin J. Schnermann
- Chemical Biology Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, MD 21702, USA
| | - Markus Sauer
- Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Oleksii Nevskyi
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Jörg Enderlein
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
- Cluster of Excellence “Multiscale Bioimaging: From Molecular Machines to Networks of Excitable Cells” (MBExC), Georg August University, Göttingen, Germany
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Heil HS, Aigner M, Maier S, Gupta P, Evers LMC, Göb V, Kusch C, Meub M, Nieswandt B, Stegner D, Heinze KG. Mapping densely packed αIIbβ3 receptors in murine blood platelets with expansion microscopy. Platelets 2022; 33:849-858. [PMID: 35109754 DOI: 10.1080/09537104.2021.2023735] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Abstract
Interrogating platelets and their densely packed, highly abundant receptor landscape is key to understand platelet clotting, a process that can save lives when stopping blood loss after an injury, but also kill when causing heart attack, stroke, or pulmonary embolism. The underlying key receptor distributions and interactions, in particular the relevance of integrin clustering, are not fully understood is because of highly abundant and densely distributed αIIbβ3 receptors. This makes receptor distributions difficult to assess even by super-resolution fluorescence microscopy. Here, we combine dual-color expansion and confocal microscopy with colocalization analysis to assess platelet receptor organization without the need of a super-resolution microscope. We show that 4x expansion is highly straight-forward for super-resolution microscopy of platelets, while 10x expansion provides higher precision at the price of increased efforts in sample preparation and imaging. Quantifying various receptor colocalization scenarios we demonstrate that expansion microscopy can pinpoint receptor distributions and interactions in resting and activated platelets being superior to conventional methods that fail in such dense 3D scenarios with highly abundant receptors. We reveal the presence of αIIbβ3 clusters in resting platelets, as well as in activated platelets, indicating that they contribute to the rapid platelet response during platelet clotting.
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Affiliation(s)
- Hannah S Heil
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany
| | - Max Aigner
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany
| | - Sophia Maier
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany
| | - Prateek Gupta
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany
| | - Luise M C Evers
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany
| | - Vanessa Göb
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany.,Institute of Experimental Biomedicine I, University Hospital Würzburg, Würzburg, Germany
| | - Charly Kusch
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany.,Institute of Experimental Biomedicine I, University Hospital Würzburg, Würzburg, Germany
| | - Mara Meub
- Department of Biotechnology and Biophysics, Biozentrum, University of Würzburg, Würzburg, Germany
| | - Bernhard Nieswandt
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany.,Institute of Experimental Biomedicine I, University Hospital Würzburg, Würzburg, Germany
| | - David Stegner
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany.,Institute of Experimental Biomedicine I, University Hospital Würzburg, Würzburg, Germany
| | - Katrin G Heinze
- Rudolf Virchow Center for Integrative and Translational Bioimaging, University of Würzburg, Würzburg, Germany
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Zelger P, Bodner L, Offterdinger M, Velas L, Schütz GJ, Jesacher A. Three-dimensional single molecule localization close to the coverslip: a comparison of methods exploiting supercritical angle fluorescence. BIOMEDICAL OPTICS EXPRESS 2021; 12:802-822. [PMID: 33680543 PMCID: PMC7901312 DOI: 10.1364/boe.413018] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/21/2020] [Revised: 12/02/2020] [Accepted: 12/15/2020] [Indexed: 06/12/2023]
Abstract
The precise spatial localization of single molecules in three dimensions is an important basis for single molecule localization microscopy (SMLM) and tracking. At distances up to a few hundred nanometers from the coverslip, evanescent wave coupling into the glass, also known as supercritical angle fluorescence (SAF), can strongly improve the axial precision, thus facilitating almost isotropic localization performance. Specific detection systems, introduced as Supercritical angle localization microscopy (SALM) or Direct optical nanoscopy with axially localized detection (DONALD), have been developed to exploit SAF in modified two-channel imaging schemes. Recently, our group has shown that off-focus microscopy, i.e., imaging at an intentional slight defocus, can perform equally well, but uses only a single detection arm. Here we compare SALM, off-focus imaging and the most commonly used 3D SMLM techniques, namely cylindrical lens and biplane imaging, regarding 3D localization in close proximity to the coverslip. We show that all methods gain from SAF, which leaves a high detection NA as the only major key requirement to unlock the SAF benefit. We find parameter settings for cylindrical lens and biplane imaging for highest z-precision. Further, we compare the methods in view of robustness to aberrations, fixed dipole emission and double-emitter events. We show that biplane imaging provides the best overall performance and support our findings by DNA-PAINT experiments on DNA-nanoruler samples. Our study sheds light on the effects of SAF for SMLM and is helpful for researchers who plan to employ localization-based 3D nanoscopy close to the coverslip.
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Affiliation(s)
- Philipp Zelger
- Division for Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
| | - Lisa Bodner
- Division for Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
| | - Martin Offterdinger
- Division of Neurobiochemistry, Biooptics, Medical University of Innsbruck, Innrain 80–82, 6020 Innsbruck, Austria
| | - Lukas Velas
- Institute of Applied Physics, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Gerhard J. Schütz
- Institute of Applied Physics, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Alexander Jesacher
- Division for Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
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Liu Z, Agarwal K. Silicon substrate significantly alters dipole-dipole resolution in coherent microscope. OPTICS EXPRESS 2020; 28:39713-39726. [PMID: 33379515 DOI: 10.1364/oe.409629] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/08/2020] [Accepted: 11/04/2020] [Indexed: 06/12/2023]
Abstract
Considering a coherent microscopy setup, influences of the substrate below the sample in the imaging performances are studied, with a focus on high refractive index substrate such as silicon. Analytical expression of 3D full-wave vectorial point spread function, i.e. the dyadic Green's function is derived for the optical setup together with the substrate. Numerical analysis are performed in order to understand and compare magnification, depth of field, and resolution when using silicon substrate versus the conventional glass substrate or usually modelled condition of no substrate. Novel insights are generated about the scope of resolution improvement due to near field effect of the silicon substrate. Importantly, we show that the expected resolution varies greatly with the position of the sources and the substrate interface relative to the focal plane. Both better and worse resolution as compared to glass substrate may be expected with small changes in their positions. Therefore, our studies show that deriving a single indicative number of expected resolution is neither possible nor judicious for the case of silicon substrate.
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Zelger P, Bodner L, Velas L, Schütz GJ, Jesacher A. Defocused imaging exploits supercritical-angle fluorescence emission for precise axial single molecule localization microscopy. BIOMEDICAL OPTICS EXPRESS 2020; 11:775-790. [PMID: 32206395 PMCID: PMC7041438 DOI: 10.1364/boe.375678] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2019] [Revised: 12/11/2019] [Accepted: 12/11/2019] [Indexed: 05/07/2023]
Abstract
Single molecule localization microscopy (SMLM) is one of the key techniques that break the classical resolution limit in optical imaging. It is based on taking multiple recordings of a sample, each showing only a sparse arrangement of spatially well separated fluorescent molecules which can be localized at nanometer precision. While localizing along the lateral directions is usually straightforward, estimating axial positions at a comparable precision is known to be much harder, which is due to the relatively large depth of focus provided by the microscope optics. Whenever a molecule is sufficiently close to the coverslip, it becomes feasible to draw additional information from near field coupling effects: super-critical angle fluorescence (SAF) appears and can be exploited to boost the axial localization precision. Here we propose defocused imaging as a SMLM strategy that is capable of leveraging the information contained in SAF. We show that, regarding axial localization precision, our approach is superior to established SAF-based approaches. At the same time it is simple and can be conducted on any research-grade microscope where controlled defocusing on the order of a few hundred nanometers is possible.
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Affiliation(s)
- Philipp Zelger
- Division for Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
| | - Lisa Bodner
- Division for Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
| | - Lukas Velas
- Institute of Applied Physics, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Gerhard J. Schütz
- Institute of Applied Physics, TU Wien, Getreidemarkt 9, 1060 Vienna, Austria
| | - Alexander Jesacher
- Division for Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
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