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Kumar A, Bharadwaj A, Choudhury P, Mathew SP, Jaganathan BG, Boruah BR. Tuning the excitation laser power in a stochastic optical reconstruction microscope for Alexa Fluor 647 dye in Vectashield mounting media. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2024; 95:083701. [PMID: 39087814 DOI: 10.1063/5.0217409] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2024] [Accepted: 07/14/2024] [Indexed: 08/02/2024]
Abstract
Super-resolution imaging techniques have fundamentally changed our understanding of cellular architecture and dynamics by surpassing the diffraction limit and enabling the visualization of subcellular details. The popular super-resolution method known as stochastic optical reconstruction microscopy (STORM) relies on the exact localization of single fluorescent molecules. The significance of employing Vectashield as a mounting medium for the super-resolution imaging scheme called direct STORM has recently been explored. Alexa Fluor 647 (AF647), one of the most popular dyes, shows significant blinking in Vectashield. However, to observe prominent blinking of the fluorophore for the reconstruction of super-resolved images, the power of the excitation laser needs to be tuned. This work demonstrates the tuning of excitation power density in the sample plane for superior imaging performance using AF647 in Vectashield. Samples comprising MDA-MB-231 breast cancer cell line are used for the experiments. The actin filaments of the cell are stained with phalloidin-conjugated AF647 dye. For the experiment, we employ a low-cost openFrame-based STORM system equipped with a programmable Arduino-regulated laser source emitting at 638 nm. An excitation power density of 0.60 kW/cm2 at 638 nm in the sample plane is observed to maximize the signal-to-noise ratio, the number of switching events, and the number of photons detected per event during image acquisition, thereby leading to the best imaging performance in terms of resolution. The outcome of this work will promote further STORM-based super-resolved imaging applications in cell biology using Alexa Fluor 647 in Vectashield.
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Affiliation(s)
- Amalesh Kumar
- Department of Physics, IIT Guwahati, Guwahati 781039, Assam, India
| | - Anupam Bharadwaj
- Department of Physics, IIT Guwahati, Guwahati 781039, Assam, India
| | | | - Sam P Mathew
- Department of Bioscience and Bioengineering, IIT Guwahati, Guwahati 781039, Assam, India
| | - Bithiah Grace Jaganathan
- Department of Bioscience and Bioengineering, IIT Guwahati, Guwahati 781039, Assam, India
- Jyoti and Bhupat Mehta School of Health Sciences and Technology, IIT Guwahati, Guwahati 781039, Assam, India
| | - Bosanta R Boruah
- Department of Physics, IIT Guwahati, Guwahati 781039, Assam, India
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2
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Astratov VN, Sahel YB, Eldar YC, Huang L, Ozcan A, Zheludev N, Zhao J, Burns Z, Liu Z, Narimanov E, Goswami N, Popescu G, Pfitzner E, Kukura P, Hsiao YT, Hsieh CL, Abbey B, Diaspro A, LeGratiet A, Bianchini P, Shaked NT, Simon B, Verrier N, Debailleul M, Haeberlé O, Wang S, Liu M, Bai Y, Cheng JX, Kariman BS, Fujita K, Sinvani M, Zalevsky Z, Li X, Huang GJ, Chu SW, Tzang O, Hershkovitz D, Cheshnovsky O, Huttunen MJ, Stanciu SG, Smolyaninova VN, Smolyaninov II, Leonhardt U, Sahebdivan S, Wang Z, Luk’yanchuk B, Wu L, Maslov AV, Jin B, Simovski CR, Perrin S, Montgomery P, Lecler S. Roadmap on Label-Free Super-Resolution Imaging. LASER & PHOTONICS REVIEWS 2023; 17:2200029. [PMID: 38883699 PMCID: PMC11178318 DOI: 10.1002/lpor.202200029] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Indexed: 06/18/2024]
Abstract
Label-free super-resolution (LFSR) imaging relies on light-scattering processes in nanoscale objects without a need for fluorescent (FL) staining required in super-resolved FL microscopy. The objectives of this Roadmap are to present a comprehensive vision of the developments, the state-of-the-art in this field, and to discuss the resolution boundaries and hurdles which need to be overcome to break the classical diffraction limit of the LFSR imaging. The scope of this Roadmap spans from the advanced interference detection techniques, where the diffraction-limited lateral resolution is combined with unsurpassed axial and temporal resolution, to techniques with true lateral super-resolution capability which are based on understanding resolution as an information science problem, on using novel structured illumination, near-field scanning, and nonlinear optics approaches, and on designing superlenses based on nanoplasmonics, metamaterials, transformation optics, and microsphere-assisted approaches. To this end, this Roadmap brings under the same umbrella researchers from the physics and biomedical optics communities in which such studies have often been developing separately. The ultimate intent of this paper is to create a vision for the current and future developments of LFSR imaging based on its physical mechanisms and to create a great opening for the series of articles in this field.
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Affiliation(s)
- Vasily N. Astratov
- Department of Physics and Optical Science, University of North Carolina at Charlotte, Charlotte, North Carolina 28223-0001, USA
| | - Yair Ben Sahel
- Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 7610001, Israel
| | - Yonina C. Eldar
- Department of Computer Science and Applied Mathematics, Weizmann Institute of Science, Rehovot 7610001, Israel
| | - Luzhe Huang
- Electrical and Computer Engineering Department, University of California, Los Angeles, California 90095, USA
- Bioengineering Department, University of California, Los Angeles, California 90095, USA
- California Nano Systems Institute (CNSI), University of California, Los Angeles, California 90095, USA
| | - Aydogan Ozcan
- Electrical and Computer Engineering Department, University of California, Los Angeles, California 90095, USA
- Bioengineering Department, University of California, Los Angeles, California 90095, USA
- California Nano Systems Institute (CNSI), University of California, Los Angeles, California 90095, USA
- David Geffen School of Medicine, University of California, Los Angeles, California 90095, USA
| | - Nikolay Zheludev
- Optoelectronics Research Centre, University of Southampton, Southampton, SO17 1BJ, UK
- Centre for Disruptive Photonic Technologies, The Photonics Institute, School of Physical and Mathematical Sciences, Nanyang Technological University, 637371, Singapore
| | - Junxiang Zhao
- Department of Electrical and Computer Engineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093, USA
| | - Zachary Burns
- Department of Electrical and Computer Engineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093, USA
| | - Zhaowei Liu
- Department of Electrical and Computer Engineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093, USA
- Material Science and Engineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, California 92093, USA
| | - Evgenii Narimanov
- School of Electrical Engineering, and Birck Nanotechnology Center, Purdue University, West Lafayette, Indiana 47907, USA
| | - Neha Goswami
- Quantitative Light Imaging Laboratory, Beckman Institute of Advanced Science and Technology, University of Illinois at Urbana-Champaign, Illinois 61801, USA
| | - Gabriel Popescu
- Quantitative Light Imaging Laboratory, Beckman Institute of Advanced Science and Technology, University of Illinois at Urbana-Champaign, Illinois 61801, USA
| | - Emanuel Pfitzner
- Department of Chemistry, University of Oxford, Oxford OX1 3QZ, United Kingdom
| | - Philipp Kukura
- Department of Chemistry, University of Oxford, Oxford OX1 3QZ, United Kingdom
| | - Yi-Teng Hsiao
- Institute of Atomic and Molecular Sciences (IAMS), Academia Sinica 1, Roosevelt Rd. Sec. 4, Taipei 10617 Taiwan
| | - Chia-Lung Hsieh
- Institute of Atomic and Molecular Sciences (IAMS), Academia Sinica 1, Roosevelt Rd. Sec. 4, Taipei 10617 Taiwan
| | - Brian Abbey
- Australian Research Council Centre of Excellence for Advanced Molecular Imaging, La Trobe University, Melbourne, Victoria, Australia
- Department of Chemistry and Physics, La Trobe Institute for Molecular Science (LIMS), La Trobe University, Melbourne, Victoria, Australia
| | - Alberto Diaspro
- Optical Nanoscopy and NIC@IIT, CHT, Istituto Italiano di Tecnologia, Via Enrico Melen 83B, 16152 Genoa, Italy
- DIFILAB, Department of Physics, University of Genoa, Via Dodecaneso 33, 16146 Genoa, Italy
| | - Aymeric LeGratiet
- Optical Nanoscopy and NIC@IIT, CHT, Istituto Italiano di Tecnologia, Via Enrico Melen 83B, 16152 Genoa, Italy
- Université de Rennes, CNRS, Institut FOTON - UMR 6082, F-22305 Lannion, France
| | - Paolo Bianchini
- Optical Nanoscopy and NIC@IIT, CHT, Istituto Italiano di Tecnologia, Via Enrico Melen 83B, 16152 Genoa, Italy
- DIFILAB, Department of Physics, University of Genoa, Via Dodecaneso 33, 16146 Genoa, Italy
| | - Natan T. Shaked
- Tel Aviv University, Faculty of Engineering, Department of Biomedical Engineering, Tel Aviv 6997801, Israel
| | - Bertrand Simon
- LP2N, Institut d’Optique Graduate School, CNRS UMR 5298, Université de Bordeaux, Talence France
| | - Nicolas Verrier
- IRIMAS UR UHA 7499, Université de Haute-Alsace, Mulhouse, France
| | | | - Olivier Haeberlé
- IRIMAS UR UHA 7499, Université de Haute-Alsace, Mulhouse, France
| | - Sheng Wang
- School of Physics and Technology, Wuhan University, China
- Wuhan Institute of Quantum Technology, China
| | - Mengkun Liu
- Department of Physics and Astronomy, Stony Brook University, USA
- National Synchrotron Light Source II, Brookhaven National Laboratory, USA
| | - Yeran Bai
- Boston University Photonics Center, Boston, MA 02215, USA
| | - Ji-Xin Cheng
- Boston University Photonics Center, Boston, MA 02215, USA
| | - Behjat S. Kariman
- Optical Nanoscopy and NIC@IIT, CHT, Istituto Italiano di Tecnologia, Via Enrico Melen 83B, 16152 Genoa, Italy
- DIFILAB, Department of Physics, University of Genoa, Via Dodecaneso 33, 16146 Genoa, Italy
| | - Katsumasa Fujita
- Department of Applied Physics and the Advanced Photonics and Biosensing Open Innovation Laboratory (AIST); and the Transdimensional Life Imaging Division, Institute for Open and Transdisciplinary Research Initiatives, Osaka University, Osaka, Japan
| | - Moshe Sinvani
- Faculty of Engineering and the Nano-Technology Center, Bar-Ilan University, Ramat Gan, 52900 Israel
| | - Zeev Zalevsky
- Faculty of Engineering and the Nano-Technology Center, Bar-Ilan University, Ramat Gan, 52900 Israel
| | - Xiangping Li
- Guangdong Provincial Key Laboratory of Optical Fiber Sensing and Communications, Institute of Photonics Technology, Jinan University, Guangzhou 510632, China
| | - Guan-Jie Huang
- Department of Physics and Molecular Imaging Center, National Taiwan University, Taipei 10617, Taiwan
- Brain Research Center, National Tsing Hua University, Hsinchu 30013, Taiwan
| | - Shi-Wei Chu
- Department of Physics and Molecular Imaging Center, National Taiwan University, Taipei 10617, Taiwan
- Brain Research Center, National Tsing Hua University, Hsinchu 30013, Taiwan
| | - Omer Tzang
- School of Chemistry, The Sackler faculty of Exact Sciences, and the Center for Light matter Interactions, and the Tel Aviv University Center for Nanoscience and Nanotechnology, Tel Aviv 69978, Israel
| | - Dror Hershkovitz
- School of Chemistry, The Sackler faculty of Exact Sciences, and the Center for Light matter Interactions, and the Tel Aviv University Center for Nanoscience and Nanotechnology, Tel Aviv 69978, Israel
| | - Ori Cheshnovsky
- School of Chemistry, The Sackler faculty of Exact Sciences, and the Center for Light matter Interactions, and the Tel Aviv University Center for Nanoscience and Nanotechnology, Tel Aviv 69978, Israel
| | - Mikko J. Huttunen
- Laboratory of Photonics, Physics Unit, Tampere University, FI-33014, Tampere, Finland
| | - Stefan G. Stanciu
- Center for Microscopy – Microanalysis and Information Processing, Politehnica University of Bucharest, 313 Splaiul Independentei, 060042, Bucharest, Romania
| | - Vera N. Smolyaninova
- Department of Physics Astronomy and Geosciences, Towson University, 8000 York Rd., Towson, MD 21252, USA
| | - Igor I. Smolyaninov
- Department of Electrical and Computer Engineering, University of Maryland, College Park, MD 20742, USA
| | - Ulf Leonhardt
- Weizmann Institute of Science, Rehovot 7610001, Israel
| | - Sahar Sahebdivan
- EMTensor GmbH, TechGate, Donau-City-Strasse 1, 1220 Wien, Austria
| | - Zengbo Wang
- School of Computer Science and Electronic Engineering, Bangor University, Bangor, LL57 1UT, United Kingdom
| | - Boris Luk’yanchuk
- Faculty of Physics, Lomonosov Moscow State University, Moscow 119991, Russia
| | - Limin Wu
- Department of Materials Science and State Key Laboratory of Molecular Engineering of Polymers, Fudan University, Shanghai 200433, China
| | - Alexey V. Maslov
- Department of Radiophysics, University of Nizhny Novgorod, Nizhny Novgorod, 603022, Russia
| | - Boya Jin
- Department of Physics and Optical Science, University of North Carolina at Charlotte, Charlotte, North Carolina 28223-0001, USA
| | - Constantin R. Simovski
- Department of Electronics and Nano-Engineering, Aalto University, FI-00076, Espoo, Finland
- Faculty of Physics and Engineering, ITMO University, 199034, St-Petersburg, Russia
| | - Stephane Perrin
- ICube Research Institute, University of Strasbourg - CNRS - INSA de Strasbourg, 300 Bd. Sébastien Brant, 67412 Illkirch, France
| | - Paul Montgomery
- ICube Research Institute, University of Strasbourg - CNRS - INSA de Strasbourg, 300 Bd. Sébastien Brant, 67412 Illkirch, France
| | - Sylvain Lecler
- ICube Research Institute, University of Strasbourg - CNRS - INSA de Strasbourg, 300 Bd. Sébastien Brant, 67412 Illkirch, France
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3
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Panahiyan S, Muñoz CS, Chekhova MV, Schlawin F. Nonlinear Interferometry for Quantum-Enhanced Measurements of Multiphoton Absorption. PHYSICAL REVIEW LETTERS 2023; 130:203604. [PMID: 37267533 DOI: 10.1103/physrevlett.130.203604] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2022] [Revised: 03/30/2023] [Accepted: 04/25/2023] [Indexed: 06/04/2023]
Abstract
Multiphoton absorption is of vital importance in many spectroscopic, microscopic, or lithographic applications. However, given that it is an inherently weak process, the detection of multiphoton absorption signals typically requires large field intensities, hindering its applicability in many practical situations. In this Letter, we show that placing a multiphoton absorbent inside an imbalanced nonlinear interferometer can enhance the precision of multiphoton cross section estimation with respect to strategies based on photon-number measurements using coherent or even squeezed light directly transmitted through the medium. In particular, the power scaling of the sensitivity with photon flux can be increased by 1 order compared with transmission measurements of the sample with coherent light, such that the measurement precision at any given intensity can be greatly enhanced. Furthermore, we show that this enhanced measurement precision is robust against experimental imperfections leading to photon losses, which usually tend to degrade the detection sensitivity. We trace the origin of this enhancement to an optimal degree of squeezing which has to be generated in a nonlinear SU(1,1) interferometer.
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Affiliation(s)
- Shahram Panahiyan
- Max Planck Institute for the Structure and Dynamics of Matter, Luruper Chaussee 149, 22761 Hamburg, Germany
- The Hamburg Centre for Ultrafast Imaging, Luruper Chaussee 149, Hamburg D-22761, Germany
- University of Hamburg, Luruper Chaussee 149, 22761 Hamburg, Germany
| | - Carlos Sánchez Muñoz
- Departamento de Física Teórica de la Materia Condensada and Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Maria V Chekhova
- Max-Planck Institute for the Science of Light, Staudtstraße 2, Erlangen D-91058, Germany
- University of Erlangen-Nuremberg, Staudtstraße 7/B2, Erlangen D-91058, Germany
| | - Frank Schlawin
- Max Planck Institute for the Structure and Dynamics of Matter, Luruper Chaussee 149, 22761 Hamburg, Germany
- The Hamburg Centre for Ultrafast Imaging, Luruper Chaussee 149, Hamburg D-22761, Germany
- University of Hamburg, Luruper Chaussee 149, 22761 Hamburg, Germany
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4
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Volpato A, Ollech D, Alvelid J, Damenti M, Müller B, York AG, Ingaramo M, Testa I. Extending fluorescence anisotropy to large complexes using reversibly switchable proteins. Nat Biotechnol 2023; 41:552-559. [PMID: 36217028 PMCID: PMC10110461 DOI: 10.1038/s41587-022-01489-7] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2021] [Accepted: 08/26/2022] [Indexed: 11/08/2022]
Abstract
The formation of macromolecular complexes can be measured by detection of changes in rotational mobility using time-resolved fluorescence anisotropy. However, this method is limited to relatively small molecules (~0.1-30 kDa), excluding the majority of the human proteome and its complexes. We describe selective time-resolved anisotropy with reversibly switchable states (STARSS), which overcomes this limitation and extends the observable mass range by more than three orders of magnitude. STARSS is based on long-lived reversible molecular transitions of switchable fluorescent proteins to resolve the relatively slow rotational diffusivity of large complexes. We used STARSS to probe the rotational mobility of several molecular complexes in cells, including chromatin, the retroviral Gag lattice and activity-regulated cytoskeleton-associated protein oligomers. Because STARSS can probe arbitrarily large structures, it is generally applicable to the entire human proteome.
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Affiliation(s)
- Andrea Volpato
- Department of Applied Physics and Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden
| | - Dirk Ollech
- Department of Applied Physics and Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden
| | - Jonatan Alvelid
- Department of Applied Physics and Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden
| | - Martina Damenti
- Department of Applied Physics and Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden
| | - Barbara Müller
- Department of Infectious Diseases, Virology, Centre for Integrative Infectious Disease Research, University Hospital Heidelberg, Heidelberg, Germany
| | - Andrew G York
- Calico Life Sciences LLC, South San Francisco, CA, USA
| | | | - Ilaria Testa
- Department of Applied Physics and Science for Life Laboratory, KTH Royal Institute of Technology, Stockholm, Sweden.
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5
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Burgers TCQ, Vlijm R. Fluorescence-based super-resolution-microscopy strategies for chromatin studies. Chromosoma 2023:10.1007/s00412-023-00792-9. [PMID: 37000292 PMCID: PMC10356683 DOI: 10.1007/s00412-023-00792-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2022] [Revised: 02/28/2023] [Accepted: 03/16/2023] [Indexed: 04/01/2023]
Abstract
Super-resolution microscopy (SRM) is a prime tool to study chromatin organisation at near biomolecular resolution in the native cellular environment. With fluorescent labels DNA, chromatin-associated proteins and specific epigenetic states can be identified with high molecular specificity. The aim of this review is to introduce the field of diffraction-unlimited SRM to enable an informed selection of the most suitable SRM method for a specific chromatin-related research question. We will explain both diffraction-unlimited approaches (coordinate-targeted and stochastic-localisation-based) and list their characteristic spatio-temporal resolutions, live-cell compatibility, image-processing, and ability for multi-colour imaging. As the increase in resolution, compared to, e.g. confocal microscopy, leads to a central role of the sample quality, important considerations for sample preparation and concrete examples of labelling strategies applicable to chromatin research are discussed. To illustrate how SRM-based methods can significantly improve our understanding of chromatin functioning, and to serve as an inspiring starting point for future work, we conclude with examples of recent applications of SRM in chromatin research.
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Affiliation(s)
- Thomas C Q Burgers
- Molecular Biophysics, Zernike Institute for Advanced Materials, Rijksuniversiteit Groningen, Groningen, the Netherlands
| | - Rifka Vlijm
- Molecular Biophysics, Zernike Institute for Advanced Materials, Rijksuniversiteit Groningen, Groningen, the Netherlands.
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6
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Albert A, Fried M, Thelakkat M, Köhler J. Emission modulation of fluorescent turn-on mode dibenzothienyl sulfonyl ethene photoswitches embedded in a polymer film. Phys Chem Chem Phys 2022; 24:29791-29800. [PMID: 36468239 DOI: 10.1039/d2cp05062e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
For decades photochromic molecules have attracted attention for their potential in using light as an external stimulus to change their photophysical properties. Here we report the spectroscopic characterization of two emissive photochromic molecules that are intrinsically fluorescent and that undergo a photocyclization/cycloreversion reaction upon illumination with light in the UV and VIS spectral ranges. For appropriately adjusted illumination intensities the emission can be modulated between the high- and the low-level with a contrast ratio exceeding 80%. The data are in reasonable agreement with the predictions from a simple kinetic model.
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Affiliation(s)
- Andrea Albert
- Spectroscopy of soft Matter, University of Bayreuth, 95440, Bayreuth, Germany.
| | - Martina Fried
- Applied Functional Materials, University of Bayreuth, 95440, Bayreuth, Germany
| | - Mukundan Thelakkat
- Applied Functional Materials, University of Bayreuth, 95440, Bayreuth, Germany.,Bavarian Polymer Institute, University of Bayreuth, 95440, Bayreuth, Germany.,Bayreuther Institut für Makromolekülforschung (BIMF), 95440, Bayreuth, Germany
| | - Jürgen Köhler
- Spectroscopy of soft Matter, University of Bayreuth, 95440, Bayreuth, Germany. .,Bavarian Polymer Institute, University of Bayreuth, 95440, Bayreuth, Germany.,Bayreuther Institut für Makromolekülforschung (BIMF), 95440, Bayreuth, Germany
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7
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Casas Moreno X, Pennacchietti F, Minet G, Damenti M, Ollech D, Barabas F, Testa I. Multi-foci parallelised RESOLFT nanoscopy in an extended field-of-view. J Microsc 2022. [PMID: 36377300 DOI: 10.1111/jmi.13157] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 10/14/2022] [Accepted: 11/09/2022] [Indexed: 11/16/2022]
Abstract
Live-cell imaging of biological structures at high resolution poses challenges in the microscope throughput regarding area and speed. For this reason, different parallelisation strategies have been implemented in coordinate- and stochastic-targeted switching super-resolution microscopy techniques. In this line, the molecular nanoscale live imaging with sectioning ability (MoNaLISA), based on reversible saturable optical fluorescence transitions (RESOLFT), offers 45 - 65 nm $45 - 65\;{\rm{nm}}$ resolution of large fields of view in a few seconds. In MoNaLISA, engineered light patterns strategically confine the fluorescence to sub-diffracted volumes in a large area and provide optical sectioning, thus enabling volumetric imaging at high speeds. The optical setup presented in this paper extends the degree of parallelisation of the MoNaLISA microscope by more than four times, reaching a field-of-view of ( 100 - 130 μ m ) 2 ${( {100 - 130\;{\rm{\mu m}}} )^2}$ . We set up the periodicity and the optical scheme of the illumination patterns to be power-efficient and homogeneous. In a single recording, this new configuration enables super-resolution imaging of an extended population of the post-synaptic density protein Homer1c in living hippocampal neurons.
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Affiliation(s)
| | | | - Guillaume Minet
- SciLifeLab, KTH Royal Institute of Technology, Solna, Sweden
| | - Martina Damenti
- SciLifeLab, KTH Royal Institute of Technology, Solna, Sweden
| | - Dirk Ollech
- SciLifeLab, KTH Royal Institute of Technology, Solna, Sweden
| | | | - Ilaria Testa
- SciLifeLab, KTH Royal Institute of Technology, Solna, Sweden
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8
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Pu R, Zhan Q, Peng X, Liu S, Guo X, Liang L, Qin X, Zhao ZW, Liu X. Super-resolution microscopy enabled by high-efficiency surface-migration emission depletion. Nat Commun 2022; 13:6636. [PMID: 36333290 PMCID: PMC9636245 DOI: 10.1038/s41467-022-33726-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2022] [Accepted: 09/28/2022] [Indexed: 11/06/2022] Open
Abstract
Nonlinear depletion of fluorescence states by stimulated emission constitutes the basis of stimulated emission depletion (STED) microscopy. Despite significant efforts over the past decade, achieving super-resolution at low saturation intensities by STED remains a major technical challenge. By harnessing the surface quenching effect in NaGdF4:Yb/Tm nanocrystals, we report here high-efficiency emission depletion through surface migration. Using a dual-beam, continuous-wave laser manipulation scheme (975-nm excitation and 730-nm de-excitation), we achieved an emission depletion efficiency of over 95% and a low saturation intensity of 18.3 kW cm-2. Emission depletion by surface migration through gadolinium sublattices enables super-resolution imaging with sub-20 nm lateral resolution. Our approach circumvents the fundamental limitation of high-intensity STED microscopy, providing autofluorescence-free, re-excitation-background-free imaging with a saturation intensity over three orders of magnitude lower than conventional fluorophores. We also demonstrated super-resolution imaging of actin filaments in Hela cells labeled with 8-nm nanoparticles. Combined with the highly photostable lanthanide luminescence, surface-migration emission depletion (SMED) could provide a powerful mechanism for low-power, super-resolution imaging or biological tracking as well as super-resolved optical sensing/writing and lithography.
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Affiliation(s)
- Rui Pu
- grid.263785.d0000 0004 0368 7397Centre for Optical and Electromagnetic Research, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006 P. R. China
| | - Qiuqiang Zhan
- grid.263785.d0000 0004 0368 7397Centre for Optical and Electromagnetic Research, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006 P. R. China ,grid.263785.d0000 0004 0368 7397National Center for International Research on Green Optoelectronics, Guangdong Engineering Research Centre of Optoelectronic Intelligent Information Perception, South China Normal University, Guangzhou, 510006 P. R. China ,grid.263785.d0000 0004 0368 7397MOE Key laboratory & Guangdong Provincial Key laboratory of Laser Life Science, South China Normal University, Guangzhou, 510631 P. R. China
| | - Xingyun Peng
- grid.263785.d0000 0004 0368 7397Centre for Optical and Electromagnetic Research, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006 P. R. China
| | - Siying Liu
- grid.263785.d0000 0004 0368 7397Centre for Optical and Electromagnetic Research, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006 P. R. China
| | - Xin Guo
- grid.263785.d0000 0004 0368 7397Centre for Optical and Electromagnetic Research, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006 P. R. China
| | - Liangliang Liang
- grid.4280.e0000 0001 2180 6431Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore, 117543 Singapore
| | - Xian Qin
- grid.4280.e0000 0001 2180 6431Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore, 117543 Singapore
| | - Ziqing Winston Zhao
- grid.4280.e0000 0001 2180 6431Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore, 117543 Singapore ,grid.4280.e0000 0001 2180 6431Centre for BioImaging Sciences, National University of Singapore, 14 Science Drive 4, Singapore, 117557 Singapore ,grid.4280.e0000 0001 2180 6431Mechanobiology Institute, National University of Singapore, 5A Engineering Drive 1, Singapore, 117411 Singapore
| | - Xiaogang Liu
- grid.4280.e0000 0001 2180 6431Department of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore, 117543 Singapore ,grid.4280.e0000 0001 2180 6431The N.1 Institute for Health, National University of Singapore, Singapore, 117456 Singapore
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9
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Liu X, Jiang Y, Cui Y, Yuan J, Fang X. Deep learning in single-molecule imaging and analysis: recent advances and prospects. Chem Sci 2022; 13:11964-11980. [PMID: 36349113 PMCID: PMC9600384 DOI: 10.1039/d2sc02443h] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2022] [Accepted: 09/19/2022] [Indexed: 09/19/2023] Open
Abstract
Single-molecule microscopy is advantageous in characterizing heterogeneous dynamics at the molecular level. However, there are several challenges that currently hinder the wide application of single molecule imaging in bio-chemical studies, including how to perform single-molecule measurements efficiently with minimal run-to-run variations, how to analyze weak single-molecule signals efficiently and accurately without the influence of human bias, and how to extract complete information about dynamics of interest from single-molecule data. As a new class of computer algorithms that simulate the human brain to extract data features, deep learning networks excel in task parallelism and model generalization, and are well-suited for handling nonlinear functions and extracting weak features, which provide a promising approach for single-molecule experiment automation and data processing. In this perspective, we will highlight recent advances in the application of deep learning to single-molecule studies, discuss how deep learning has been used to address the challenges in the field as well as the pitfalls of existing applications, and outline the directions for future development.
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Affiliation(s)
- Xiaolong Liu
- Key Laboratory of Molecular Nanostructure and Nanotechnology, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 P. R. China
| | - Yifei Jiang
- Institute of Basic Medicine and Cancer, Chinese Academy of Sciences Hangzhou 310022 Zhejiang China
| | - Yutong Cui
- Key Laboratory of Molecular Nanostructure and Nanotechnology, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 P. R. China
| | - Jinghe Yuan
- Key Laboratory of Molecular Nanostructure and Nanotechnology, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences Beijing 100190 China
| | - Xiaohong Fang
- Key Laboratory of Molecular Nanostructure and Nanotechnology, CAS Research/Education Center for Excellence in Molecular Sciences, Institute of Chemistry, Chinese Academy of Sciences Beijing 100190 China
- University of Chinese Academy of Sciences Beijing 100049 P. R. China
- Institute of Basic Medicine and Cancer, Chinese Academy of Sciences Hangzhou 310022 Zhejiang China
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10
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Graham TGW, Ferrie JJ, Dailey GM, Tjian R, Darzacq X. Detecting molecular interactions in live-cell single-molecule imaging with proximity-assisted photoactivation (PAPA). eLife 2022; 11:e76870. [PMID: 35976226 PMCID: PMC9531946 DOI: 10.7554/elife.76870] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Accepted: 08/16/2022] [Indexed: 11/13/2022] Open
Abstract
Single-molecule imaging provides a powerful way to study biochemical processes in live cells, yet it remains challenging to track single molecules while simultaneously detecting their interactions. Here, we describe a novel property of rhodamine dyes, proximity-assisted photoactivation (PAPA), in which one fluorophore (the 'sender') can reactivate a second fluorophore (the 'receiver') from a dark state. PAPA requires proximity between the two fluorophores, yet it operates at a longer average intermolecular distance than Förster resonance energy transfer (FRET). We show that PAPA can be used in live cells both to detect protein-protein interactions and to highlight a subpopulation of labeled protein complexes in which two different labels are in proximity. In proof-of-concept experiments, PAPA detected the expected correlation between androgen receptor self-association and chromatin binding at the single-cell level. These results establish a new way in which a photophysical property of fluorophores can be harnessed to study molecular interactions in single-molecule imaging of live cells.
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Affiliation(s)
- Thomas GW Graham
- Department of Molecular and Cell Biology, University of California, BerkeleyBerkeleyUnited States
| | - John Joseph Ferrie
- Department of Molecular and Cell Biology, University of California, BerkeleyBerkeleyUnited States
| | - Gina M Dailey
- Department of Molecular and Cell Biology, University of California, BerkeleyBerkeleyUnited States
| | - Robert Tjian
- Department of Molecular and Cell Biology, University of California, BerkeleyBerkeleyUnited States
- Howard Hughes Medical Institute, University of California, BerkeleyBerkeleyUnited States
| | - Xavier Darzacq
- Department of Molecular and Cell Biology, University of California, BerkeleyBerkeleyUnited States
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11
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Li W, Kaminski Schierle GS, Lei B, Liu Y, Kaminski CF. Fluorescent Nanoparticles for Super-Resolution Imaging. Chem Rev 2022; 122:12495-12543. [PMID: 35759536 PMCID: PMC9373000 DOI: 10.1021/acs.chemrev.2c00050] [Citation(s) in RCA: 50] [Impact Index Per Article: 25.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
Super-resolution imaging techniques that overcome the diffraction limit of light have gained wide popularity for visualizing cellular structures with nanometric resolution. Following the pace of hardware developments, the availability of new fluorescent probes with superior properties is becoming ever more important. In this context, fluorescent nanoparticles (NPs) have attracted increasing attention as bright and photostable probes that address many shortcomings of traditional fluorescent probes. The use of NPs for super-resolution imaging is a recent development and this provides the focus for the current review. We give an overview of different super-resolution methods and discuss their demands on the properties of fluorescent NPs. We then review in detail the features, strengths, and weaknesses of each NP class to support these applications and provide examples from their utilization in various biological systems. Moreover, we provide an outlook on the future of the field and opportunities in material science for the development of probes for multiplexed subcellular imaging with nanometric resolution.
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Affiliation(s)
- Wei Li
- Key
Laboratory for Biobased Materials and Energy of Ministry of Education,
College of Materials and Energy, South China
Agricultural University, Guangzhou 510642, People’s Republic
of China,Department
of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge CB3 0AS, United Kingdom
| | | | - Bingfu Lei
- Key
Laboratory for Biobased Materials and Energy of Ministry of Education,
College of Materials and Energy, South China
Agricultural University, Guangzhou 510642, People’s Republic
of China,B. Lei.
| | - Yingliang Liu
- Key
Laboratory for Biobased Materials and Energy of Ministry of Education,
College of Materials and Energy, South China
Agricultural University, Guangzhou 510642, People’s Republic
of China
| | - Clemens F. Kaminski
- Department
of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge CB3 0AS, United Kingdom,C. F. Kaminski.
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12
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Nienhaus K, Nienhaus GU. Genetically encodable fluorescent protein markers in advanced optical imaging. Methods Appl Fluoresc 2022; 10. [PMID: 35767981 DOI: 10.1088/2050-6120/ac7d3f] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2022] [Accepted: 06/29/2022] [Indexed: 11/12/2022]
Abstract
Optical fluorescence microscopy plays a pivotal role in the exploration of biological structure and dynamics, especially on live specimens. Progress in the field relies, on the one hand, on technical advances in imaging and data processing and, on the other hand, on progress in fluorescent marker technologies. Among these, genetically encodable fluorescent proteins (FPs) are invaluable tools, as they allow facile labeling of live cells, tissues or organisms, as these produce the FP markers all by themselves after introduction of a suitable gene. Here we cover FP markers from the GFP family of proteins as well as tetrapyrrole-binding proteins, which further complement the FP toolbox in important ways. A broad range of FP variants have been endowed, by using protein engineering, with photophysical properties that are essential for specific fluorescence microscopy techniques, notably those offering nanoscale image resolution. We briefly introduce various advanced imaging methods and show how they utilize the distinct properties of the FP markers in exciting imaging applications, with the aim to guide researchers toward the design of powerful imaging experiments that are optimally suited to address their biological questions.
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Affiliation(s)
- Karin Nienhaus
- Institute of Applied Physics, Karlsruhe Institute of Technology, Wolfgang Gaede Str. 1, Karlsruhe, 76131, GERMANY
| | - Gerd Ulrich Nienhaus
- Karlsruhe Institute of Technology, Wolfgang Gaede Str. 1, Karlsruhe, 76131, GERMANY
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13
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Ghosh S, Hollingsworth JA, Gallea JI, Majumder S, Enderlein J, Chizhik AI. Excited state lifetime modulation in semiconductor nanocrystals for super-resolution imaging. NANOTECHNOLOGY 2022; 33:365201. [PMID: 35617874 DOI: 10.1088/1361-6528/ac73a2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2022] [Accepted: 05/26/2022] [Indexed: 06/15/2023]
Abstract
We report on proof of principle measurements of a concept for a super-resolution imaging method that is based on excitation field density-dependent lifetime modulation of semiconductor nanocrystals. The prerequisite of the technique is access to semiconductor nanocrystals with emission lifetimes that depend on the excitation intensity. Experimentally, the method requires a confocal microscope with fluorescence-lifetime measurement capability that makes it easily accessible to a broad optical imaging community. We demonstrate with single particle imaging that the method allows one to achieve a spatial resolution of the order of several tens of nanometers at moderate fluorescence excitation intensity.
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Affiliation(s)
- Subhabrata Ghosh
- Third Institute of Physics-Biophysics, University of Göttingen, Friedrich-Hund-Platz 1, D-37077 Göttingen, Germany
| | - Jennifer A Hollingsworth
- Center for Integrated Nanotechnologies, Materials Physics and Applications Division, Los Alamos National Laboratory, Los Alamos, NM 87545, United States of America
| | - Jose Ignacio Gallea
- Third Institute of Physics-Biophysics, University of Göttingen, Friedrich-Hund-Platz 1, D-37077 Göttingen, Germany
| | - Somak Majumder
- Center for Integrated Nanotechnologies, Materials Physics and Applications Division, Los Alamos National Laboratory, Los Alamos, NM 87545, United States of America
| | - Jörg Enderlein
- Third Institute of Physics-Biophysics, University of Göttingen, Friedrich-Hund-Platz 1, D-37077 Göttingen, Germany
- Cluster of Excellence 'Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells' (MBExC), Georg August University, D-37077 Göttingen, Germany
| | - Alexey I Chizhik
- Third Institute of Physics-Biophysics, University of Göttingen, Friedrich-Hund-Platz 1, D-37077 Göttingen, Germany
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14
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Gormal RS, Meunier FA. Nanoscale organization of the pre-synapse: Tracking the neurotransmitter release machinery. Curr Opin Neurobiol 2022; 75:102576. [PMID: 35716557 DOI: 10.1016/j.conb.2022.102576] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2022] [Revised: 05/02/2022] [Accepted: 05/11/2022] [Indexed: 11/18/2022]
Abstract
Chemical communication is underpinned by the fusion of neurotransmitter-containing synaptic vesicles with the plasma membrane at active zones. With the advent of super-resolution microscopy, the door is now opened to unravel the dynamic remodeling of synapses underpinning learning and memory. Imaging proteins with conventional light microscopy cannot provide submicron information vital to determining the nanoscale organization of the synapse. We will first review the current super-resolution microscopy techniques available to investigate the localization and movement of synaptic proteins and how they have been applied to visualize the synapse. We discuss the new techniques and analytical approaches have provided comprehensive insights into synaptic organization in various model systems. Finally, this review provides a brief update on how these super-resolution techniques and analyses have opened the way to a much greater understanding of the synapse, the fusion and compensatory endocytosis machinery.
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Affiliation(s)
- Rachel S Gormal
- Clem Jones Centre for Ageing Dementia Research, Queensland Brain Institute, The University of Queensland, Brisbane, Queensland, 4072, Australia. https://twitter.com/rachelgormal
| | - Frédéric A Meunier
- Clem Jones Centre for Ageing Dementia Research, Queensland Brain Institute, The University of Queensland, Brisbane, Queensland, 4072, Australia.
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15
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Guo X, Pu R, Zhu Z, Qiao S, Liang Y, Huang B, Liu H, Labrador-Páez L, Kostiv U, Zhao P, Wu Q, Widengren J, Zhan Q. Achieving low-power single-wavelength-pair nanoscopy with NIR-II continuous-wave laser for multi-chromatic probes. Nat Commun 2022; 13:2843. [PMID: 35606360 PMCID: PMC9126916 DOI: 10.1038/s41467-022-30114-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2021] [Accepted: 04/06/2022] [Indexed: 12/26/2022] Open
Abstract
Stimulated emission depletion (STED) microscopy is a powerful diffraction-unlimited technique for fluorescence imaging. Despite its rapid evolution, STED fundamentally suffers from high-intensity light illumination, sophisticated probe-defined laser schemes, and limited photon budget of the probes. Here, we demonstrate a versatile strategy, stimulated-emission induced excitation depletion (STExD), to deplete the emission of multi-chromatic probes using a single pair of low-power, near-infrared (NIR), continuous-wave (CW) lasers with fixed wavelengths. With the effect of cascade amplified depletion in lanthanide upconversion systems, we achieve emission inhibition for a wide range of emitters (e.g., Nd3+, Yb3+, Er3+, Ho3+, Pr3+, Eu3+, Tm3+, Gd3+, and Tb3+) by manipulating their common sensitizer, i.e., Nd3+ ions, using a 1064-nm laser. With NaYF4:Nd nanoparticles, we demonstrate an ultrahigh depletion efficiency of 99.3 ± 0.3% for the 450 nm emission with a low saturation intensity of 23.8 ± 0.4 kW cm-2. We further demonstrate nanoscopic imaging with a series of multi-chromatic nanoprobes with a lateral resolution down to 34 nm, two-color STExD imaging, and subcellular imaging of the immunolabelled actin filaments. The strategy expounded here promotes single wavelength-pair nanoscopy for multi-chromatic probes and for multi-color imaging under low-intensity-level NIR-II CW laser depletion.
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Affiliation(s)
- Xin Guo
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China
| | - Rui Pu
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China
| | - Zhimin Zhu
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China
| | - Shuqian Qiao
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China
| | - Yusen Liang
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China
| | - Bingru Huang
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China
| | - Haichun Liu
- Experimental Biomolecular Physics, Department of Applied Physics, KTH Royal Institute of Technology, SE-106 91, Stockholm, Sweden
| | - Lucía Labrador-Páez
- Experimental Biomolecular Physics, Department of Applied Physics, KTH Royal Institute of Technology, SE-106 91, Stockholm, Sweden
| | - Uliana Kostiv
- Experimental Biomolecular Physics, Department of Applied Physics, KTH Royal Institute of Technology, SE-106 91, Stockholm, Sweden
| | - Pu Zhao
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China
| | - Qiusheng Wu
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China
| | - Jerker Widengren
- Experimental Biomolecular Physics, Department of Applied Physics, KTH Royal Institute of Technology, SE-106 91, Stockholm, Sweden
| | - Qiuqiang Zhan
- Centre for Optical and Electromagnetic Research, Guangdong Provincial Key Laboratory of Optical Information Materials and Technology, National Center for International Research on Green Optoelectronics, South China Academy of Advanced Optoelectronics, South China Normal University, Guangzhou, 510006, P. R. China.
- MOE Key Laboratory and Guangdong Provincial Key Laboratory of Laser Life Science, College of Biophotonics, South China Normal University, Guangzhou, 510631, P. R. China.
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16
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Understanding immune signaling using advanced imaging techniques. Biochem Soc Trans 2022; 50:853-866. [PMID: 35343569 PMCID: PMC9162467 DOI: 10.1042/bst20210479] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2022] [Revised: 03/07/2022] [Accepted: 03/08/2022] [Indexed: 12/13/2022]
Abstract
Advanced imaging is key for visualizing the spatiotemporal regulation of immune signaling which is a complex process involving multiple players tightly regulated in space and time. Imaging techniques vary in their spatial resolution, spanning from nanometers to micrometers, and in their temporal resolution, ranging from microseconds to hours. In this review, we summarize state-of-the-art imaging methodologies and provide recent examples on how they helped to unravel the mysteries of immune signaling. Finally, we discuss the limitations of current technologies and share our insights on how to overcome these limitations to visualize immune signaling with unprecedented fidelity.
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17
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Kwon J, Elgawish MS, Shim S. Bleaching-Resistant Super-Resolution Fluorescence Microscopy. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2022; 9:e2101817. [PMID: 35088584 PMCID: PMC8948665 DOI: 10.1002/advs.202101817] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2021] [Revised: 01/07/2022] [Indexed: 05/08/2023]
Abstract
Photobleaching is the permanent loss of fluorescence after extended exposure to light and is a major limiting factor in super-resolution microscopy (SRM) that restricts spatiotemporal resolution and observation time. Strategies for preventing or overcoming photobleaching in SRM are reviewed developing new probes and chemical environments. Photostabilization strategies are introduced first, which are borrowed from conventional fluorescence microscopy, that are employed in SRM. SRM-specific strategies are then highlighted that exploit the on-off transitions of fluorescence, which is the key mechanism for achieving super-resolution, which are becoming new routes to address photobleaching in SRM. Off states can serve as a shelter from excitation by light or an exit to release a damaged probe and replace it with a fresh one. Such efforts in overcoming the photobleaching limits are anticipated to enhance resolution to molecular scales and to extend the observation time to physiological lifespans.
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Affiliation(s)
- Jiwoong Kwon
- Department of Biophysics and Biophysical ChemistryJohns Hopkins UniversityBaltimoreMD21205USA
| | - Mohamed Saleh Elgawish
- Department of ChemistryKorea UniversitySeoul02841Republic of Korea
- Medicinal Chemistry DepartmentFaculty of PharmacySuez Canal UniversityIsmailia41522Egypt
| | - Sang‐Hee Shim
- Department of ChemistryKorea UniversitySeoul02841Republic of Korea
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18
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Lincoln R, Zhang W, Lovell TC, Jodko-Piórecka K, Devlaminck PA, Sakaya A, Van Kessel A, Cosa G. Chemically Tuned, Reversible Fluorogenic Electrophile for Live Cell Nanoscopy. ACS Sens 2022; 7:166-174. [PMID: 34985871 DOI: 10.1021/acssensors.1c01940] [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: 11/28/2022]
Abstract
We report a chemically tuned fluorogenic electrophile designed to conduct live-cell super-resolution imaging by exploiting its stochastic reversible alkylation reaction with cellular nucleophiles. Consisting of a lipophilic BODIPY fluorophore tethered to an electrophilic cyanoacrylate warhead, the new probe cyanoAcroB remains nonemissive due to internal conversion along the cyanoacrylate moiety. Intermittent fluorescence occurs following thiolate Michael addition to the probe, followed by retro-Michael reaction, tuned by the cyano moiety in the acrylate warhead and BODIPY decoration. This design enables long-term super-resolved imaging of live cells by preventing fluorescent product accumulation and background increase, while preserving the pool of the probe. We demonstrate the imaging capabilities of cyanoAcroB via two methods: (i) single-molecule localization microscopy imaging with nanometer accuracy by stochastic chemical activation and (ii) super-resolution radial fluctuation. The latter tolerates higher probe concentrations and low imaging powers, as it exploits the stochastic adduct dissociation. Super-resolved imaging with cyanoAcroB reveals that electrophile alkylation is prevalent in mitochondria and endoplasmic reticulum. The 2D dynamics of these organelles within a single cell are unraveled with tens of nanometers spatial and sub-second temporal resolution through continuous imaging of cyanoAcroB extending for tens of minutes. Our work underscores the opportunities that reversible fluorogenic probes with bioinspired warheads bring toward illuminating chemical reactions with super-resolved features in live cells.
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Affiliation(s)
- Richard Lincoln
- Department of Chemistry and Quebec Center for Advanced Materials (QCAM/CQMF), McGill University, 801 Sherbrooke Street West, Montreal H3A 0B8, Quebec, Canada
| | - Wenzhou Zhang
- Department of Chemistry and Quebec Center for Advanced Materials (QCAM/CQMF), McGill University, 801 Sherbrooke Street West, Montreal H3A 0B8, Quebec, Canada
| | - Terri C. Lovell
- Department of Chemistry and Quebec Center for Advanced Materials (QCAM/CQMF), McGill University, 801 Sherbrooke Street West, Montreal H3A 0B8, Quebec, Canada
| | - Katarzyna Jodko-Piórecka
- Department of Chemistry and Quebec Center for Advanced Materials (QCAM/CQMF), McGill University, 801 Sherbrooke Street West, Montreal H3A 0B8, Quebec, Canada
- Faculty of Chemistry, University of Warsaw, Pasteura 1, Warsaw 02-093, Poland
| | - Pierre A. Devlaminck
- Department of Chemistry and Quebec Center for Advanced Materials (QCAM/CQMF), McGill University, 801 Sherbrooke Street West, Montreal H3A 0B8, Quebec, Canada
| | - Aya Sakaya
- Department of Chemistry and Quebec Center for Advanced Materials (QCAM/CQMF), McGill University, 801 Sherbrooke Street West, Montreal H3A 0B8, Quebec, Canada
| | - Antonius Van Kessel
- Department of Chemistry and Quebec Center for Advanced Materials (QCAM/CQMF), McGill University, 801 Sherbrooke Street West, Montreal H3A 0B8, Quebec, Canada
| | - Gonzalo Cosa
- Department of Chemistry and Quebec Center for Advanced Materials (QCAM/CQMF), McGill University, 801 Sherbrooke Street West, Montreal H3A 0B8, Quebec, Canada
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19
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Liaros N, Gutierrez Razo SA, Thum MD, Ogden HM, Zeppuhar AN, Wolf S, Baldacchini T, Kelley MJ, Petersen JS, Falvey DE, Mullin AS, Fourkas JT. Elucidating complex triplet-state dynamics in the model system isopropylthioxanthone. iScience 2022; 25:103600. [PMID: 35005547 PMCID: PMC8717599 DOI: 10.1016/j.isci.2021.103600] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2021] [Revised: 11/10/2021] [Accepted: 12/03/2021] [Indexed: 11/19/2022] Open
Abstract
We introduce techniques for probing the dynamics of triplet states. We employ these tools, along with conventional techniques, to develop a detailed understanding of a complex chemical system: a negative-tone, radical photoresist for multiphoton absorption polymerization in which isopropylthioxanthone (ITX) is the photoinitiator. This work reveals that the same color of light used for the 2-photon excitation of ITX, leading to population of the triplet manifold through intersystem crossing, also depletes this triplet population via linear absorption followed by reverse intersystem crossing (RISC). Using spectroscopic tools and kinetic modeling, we identify the reactive triplet state and a non-reactive reservoir triplet state. We present compelling evidence that the deactivation channel involves RISC from an excited triplet state to a highly vibrationally excited level of the electronic ground state. The work described here offers the enticing possibility of understanding, and ultimately controlling, the photochemistry and photophysics of a broad range of triplet processes.
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Affiliation(s)
- Nikolaos Liaros
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
| | | | - Matthew D. Thum
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
| | - Hannah M. Ogden
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
| | - Andrea N. Zeppuhar
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
| | - Steven Wolf
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
| | | | | | - John S. Petersen
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
- imec, Kapeldreef 75, 3001 Leuven, Belgium
| | - Daniel E. Falvey
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
| | - Amy S. Mullin
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
| | - John T. Fourkas
- Department of Chemistry & Biochemistry, University of Maryland, College Park, MD 20742, USA
- Institute for Physical Science & Technology, University of Maryland, College Park, MD 20742, USA
- Maryland Quantum Materials Center, University of Maryland, College Park, MD 20742, USA
- Maryland NanoCenter, University of Maryland, College Park, MD 20742, USA
- Corresponding author
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20
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Zhang L, Deng M, Li W, Yang G, Ye L. Wideband and high-order microwave vortex-beam launcher based on spoof surface plasmon polaritons. Sci Rep 2021; 11:23272. [PMID: 34857849 PMCID: PMC8639978 DOI: 10.1038/s41598-021-02749-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2021] [Accepted: 11/19/2021] [Indexed: 11/10/2022] Open
Abstract
The electromagnetic vortex carrying orbital angular momentum (OAM), which is first studied at optical frequency, has begun to attract widespread attention in the field of radio-frequency/microwave. However, for the OAM mode generated by traditional single antennas, there are problems such as low order and narrow bandwidth, and complex structures such as dual-fed networks may be required. In this paper, based on spoof surface plasmon polariton (SSPP) mode leaky-wave antenna, a single-port traveling-wave ring is proposed to radiate high-order OAM modes working near the cut-off frequency of SSPP state. The achieved 12-order OAM mode within 9.1–10.1 GHz (relative bandwidth of 10.4%) has the main radiation direction close to the antenna surface, forming a plane spiral OAM (PSOAM) wave, which reduces the requirements for mode purity in practical applications. This SSPP ring using periodic units as radiating elements can be an effective radiator for broadband and large-capacity OAM multiplexing communications. The structural characteristics of single feed contribute to the integration of microwave circuits.
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Affiliation(s)
- Lei Zhang
- Department of Electronic Engineering, Xiamen University, Xiamen, 361005, China
| | - Min Deng
- Red Phase Inc., Xiamen, 361008, China
| | - Weiwen Li
- Department of Electronic Engineering, Xiamen University, Xiamen, 361005, China.
| | - Guang Yang
- Department of Electronic Engineering, Xiamen University, Xiamen, 361005, China
| | - Longfang Ye
- Institute of Electromagnetics and Acoustics, Xiamen University, Xiamen, 361005, China.,State Key Laboratory of Millimeter Waves, Southeast University, Nanjing, 210096, China
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21
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Rapid ensemble measurement of protein diffusion and probe blinking dynamics in cells. BIOPHYSICAL REPORTS 2021; 1:100015. [PMID: 36425455 PMCID: PMC9680803 DOI: 10.1016/j.bpr.2021.100015] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Accepted: 08/30/2021] [Indexed: 12/25/2022]
Abstract
We present a fluorescence fluctuation image correlation analysis method that can rapidly and simultaneously measure the diffusion coefficient, photoblinking rates, and fraction of diffusing particles of fluorescent molecules in cells. Unlike other image correlation techniques, we demonstrated that our method could be applied irrespective of a nonuniformly distributed, immobile blinking fluorophore population. This allows us to measure blinking and transport dynamics in complex cell morphologies, a benefit for a range of super-resolution fluorescence imaging approaches that rely on probe emission blinking. Furthermore, we showed that our technique could be applied without directly accounting for photobleaching. We successfully employed our technique on several simulations with realistic EMCCD noise and photobleaching models, as well as on Dronpa-C12-labeled β-actin in living NIH/3T3 and HeLa cells. We found that the diffusion coefficients measured using our method were consistent with previous literature values. We further found that photoblinking rates measured in the live HeLa cells varied as expected with changing excitation power.
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22
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Drechsler M, Wolf S, Schmiegelow CT, Schmidt-Kaler F. Optical Superresolution Sensing of a Trapped Ion's Wave Packet Size. PHYSICAL REVIEW LETTERS 2021; 127:143602. [PMID: 34652202 DOI: 10.1103/physrevlett.127.143602] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Accepted: 08/23/2021] [Indexed: 06/13/2023]
Abstract
We demonstrate superresolution optical sensing of the size of the wave packet of a single trapped ion. Our method extends the well-known ground state depletion (GSD) technique to the coherent regime. Here, we use a hollow beam to strongly saturate a coherently driven dipole-forbidden transition around a subdiffraction limited area at its center and observe state dependent fluorescence. By spatially scanning this laser beam over a single trapped ^{40}Ca^{+} ion, we are able to measure the wave packet sizes of cooled ions. Using a depletion beam waist of 4.2(1) μm we reach a spatial resolution which allows us to determine a wave packet size of 39(9) nm for a near ground state cooled ion. This value matches an independently deduced value of 32(2) nm, calculated from resolved sideband spectroscopy measurements. Finally, we discuss the ultimate resolution limits of our adapted GSD imaging technique in view of applications to direct quantum wave packet imaging.
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Affiliation(s)
- Martín Drechsler
- Departamento de Física, FCEyN, UBA and IFIBA, UBA CONICET, Pabellón 1, Ciudad Universitaria, 1428 Buenos Aires, Argentina
- QUANTUM, Institut für Physik, Universität Mainz, Staudingerweg 7, 55128 Mainz, Germany
| | - Sebastian Wolf
- QUANTUM, Institut für Physik, Universität Mainz, Staudingerweg 7, 55128 Mainz, Germany
| | - Christian T Schmiegelow
- Departamento de Física, FCEyN, UBA and IFIBA, UBA CONICET, Pabellón 1, Ciudad Universitaria, 1428 Buenos Aires, Argentina
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23
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Szikora S, Görög P, Kozma C, Mihály J. Drosophila Models Rediscovered with Super-Resolution Microscopy. Cells 2021; 10:1924. [PMID: 34440693 PMCID: PMC8391832 DOI: 10.3390/cells10081924] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2021] [Revised: 07/22/2021] [Accepted: 07/27/2021] [Indexed: 11/25/2022] Open
Abstract
With the advent of super-resolution microscopy, we gained a powerful toolbox to bridge the gap between the cellular- and molecular-level analysis of living organisms. Although nanoscopy is broadly applicable, classical model organisms, such as fruit flies, worms and mice, remained the leading subjects because combining the strength of sophisticated genetics, biochemistry and electrophysiology with the unparalleled resolution provided by super-resolution imaging appears as one of the most efficient approaches to understanding the basic cell biological questions and the molecular complexity of life. Here, we summarize the major nanoscopic techniques and illustrate how these approaches were used in Drosophila model systems to revisit a series of well-known cell biological phenomena. These investigations clearly demonstrate that instead of simply achieving an improvement in image quality, nanoscopy goes far beyond with its immense potential to discover novel structural and mechanistic aspects. With the examples of synaptic active zones, centrosomes and sarcomeres, we will explain the instrumental role of super-resolution imaging pioneered in Drosophila in understanding fundamental subcellular constituents.
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Affiliation(s)
- Szilárd Szikora
- Institute of Genetics, Biological Research Centre, Temesvári krt. 62, H-6726 Szeged, Hungary;
| | - Péter Görög
- Institute of Genetics, Biological Research Centre, Temesvári krt. 62, H-6726 Szeged, Hungary;
- Doctoral School of Multidisciplinary Medical Science, Faculty of Medicine, University of Szeged, H-6725 Szeged, Hungary
| | - Csaba Kozma
- Foundation for the Future of Biomedical Sciences in Szeged, Szeged Scientists Academy, Pálfy u. 52/d, H-6725 Szeged, Hungary;
| | - József Mihály
- Institute of Genetics, Biological Research Centre, Temesvári krt. 62, H-6726 Szeged, Hungary;
- Department of Genetics, University of Szeged, H-6726 Szeged, Hungary
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24
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Paasila PJ, Fok SYY, Flores‐Rodriguez N, Sajjan S, Svahn AJ, Dennis CV, Holsinger RMD, Kril JJ, Becker TS, Banati RB, Sutherland GT, Graeber MB. Ground state depletion microscopy as a tool for studying microglia-synapse interactions. J Neurosci Res 2021; 99:1515-1532. [PMID: 33682204 PMCID: PMC8251743 DOI: 10.1002/jnr.24819] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Revised: 02/02/2021] [Accepted: 02/06/2021] [Indexed: 01/09/2023]
Abstract
Ground state depletion followed by individual molecule return microscopy (GSDIM) has been used in the past to study the nanoscale distribution of protein co-localization in living cells. We now demonstrate the successful application of GSDIM to archival human brain tissue sections including from Alzheimer's disease cases as well as experimental tissue samples from mouse and zebrafish larvae. Presynaptic terminals and microglia and their cell processes were visualized at a resolution beyond diffraction-limited light microscopy, allowing clearer insights into their interactions in situ. The procedure described here offers time and cost savings compared to electron microscopy and opens the spectrum of molecular imaging using antibodies and super-resolution microscopy to the analysis of routine formalin-fixed paraffin sections of archival human brain. The investigation of microglia-synapse interactions in dementia will be of special interest in this context.
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Affiliation(s)
- Patrick Jarmo Paasila
- Faculty of Medicine and HealthCharles Perkins Centre and School of Medical SciencesThe University of SydneyCamperdownNSWAustralia
| | - Sandra Y. Y. Fok
- Biomedical Imaging FacilityMark Wainwright Analytical CentreUniversity of New South Wales SydneyKensingtonNSWAustralia
| | - Neftali Flores‐Rodriguez
- Charles Perkins CentreSydney Microscopy and MicroanalysisThe University of SydneyCamperdownNSWAustralia
| | - Sujata Sajjan
- Faculty of Medicine and HealthBrain and Mind CentreThe University of SydneyCamperdownNSWAustralia
| | - Adam J. Svahn
- Faculty of Medicine and HealthBrain and Mind CentreThe University of SydneyCamperdownNSWAustralia
| | - Claude V. Dennis
- Faculty of Medicine and HealthCharles Perkins Centre and School of Medical SciencesThe University of SydneyCamperdownNSWAustralia
| | - R. M. Damian Holsinger
- Faculty of Medicine and HealthBrain and Mind CentreThe University of SydneyCamperdownNSWAustralia
| | - Jillian J. Kril
- Faculty of Medicine and HealthCharles Perkins Centre and School of Medical SciencesThe University of SydneyCamperdownNSWAustralia
| | - Thomas S. Becker
- Faculty of Medicine and HealthBrain and Mind CentreThe University of SydneyCamperdownNSWAustralia
| | - Richard B. Banati
- Faculty of Medicine and HealthBrain and Mind CentreThe University of SydneyCamperdownNSWAustralia
- Life SciencesAustralian Nuclear Science and Technology OrganisationKirraweeNSWAustralia
| | - Greg T. Sutherland
- Faculty of Medicine and HealthCharles Perkins Centre and School of Medical SciencesThe University of SydneyCamperdownNSWAustralia
| | - Manuel B. Graeber
- Faculty of Medicine and HealthBrain and Mind CentreThe University of SydneyCamperdownNSWAustralia
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25
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Man Z, Cui H, Lv Z, Xu Z, Wu Z, Wu Y, Liao Q, Liu M, Xi P, Zheng L, Fu H. Organic Nanoparticles-Assisted Low-Power STED Nanoscopy. NANO LETTERS 2021; 21:3487-3494. [PMID: 33848175 DOI: 10.1021/acs.nanolett.1c00161] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Stimulated emission depletion (STED) nanoscopy plays a key role in achieving sub-50 nm high spatial resolution for subcellular live-cell imaging. To avoid re-excitation, the STED wavelength has to be tuned at the red tail of the emission spectrum of fluorescent probes, leading to high depletion laser power that might damage the cell viability and functionality. Herein, with the highly emissive silica-coated core-shell organic nanoparticles (CSONPs) enabling a giant Stokes shift of 150 nm, ultralow power STED is achieved by shifting the STED wavelength to the emission maximum at 660 nm. The stimulated emission cross section is increased by ∼20-fold compared to that at the emission red tail. The measured saturation intensity and lateral resolution of our CSONP are 0.0085 MW cm-2 and 25 nm, respectively. More importantly, long-term (>3 min) dynamic super-resolution imaging of the lysosomal fusion-fission processes in living cells is performed with a resolution of 37 nm.
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Affiliation(s)
- Zhongwei Man
- Beijing Key Laboratory for Optical Materials and Photonic Devices, Capital Normal University, Beijing 100048, China
- Institute of Molecular Plus, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Hongtu Cui
- The Institute of Cardiovascular Sciences and Institute of Systems Biomedicine, School of Basic Medical Sciences, Key Laboratory of Molecular Cardiovascular Sciences of Ministry of Education, NHC Key Laboratory of Cardiovascular Molecular Biology and Regulatory Peptides, Health Science Center, Peking University, Beijing 100191, China
| | - Zheng Lv
- Beijing Key Laboratory for Optical Materials and Photonic Devices, Capital Normal University, Beijing 100048, China
- Institute of Molecular Plus, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Zhenzhen Xu
- Beijing Key Laboratory for Optical Materials and Photonic Devices, Capital Normal University, Beijing 100048, China
| | - Zhaoyang Wu
- Department of Biomedical Engineering, College of Future Technology, Peking University, Beijing 100871, China
| | - Yishi Wu
- Beijing Key Laboratory for Optical Materials and Photonic Devices, Capital Normal University, Beijing 100048, China
| | - Qing Liao
- Beijing Key Laboratory for Optical Materials and Photonic Devices, Capital Normal University, Beijing 100048, China
| | - Meihui Liu
- Beijing Key Laboratory for Optical Materials and Photonic Devices, Capital Normal University, Beijing 100048, China
| | - Peng Xi
- Department of Biomedical Engineering, College of Future Technology, Peking University, Beijing 100871, China
| | - Lemin Zheng
- The Institute of Cardiovascular Sciences and Institute of Systems Biomedicine, School of Basic Medical Sciences, Key Laboratory of Molecular Cardiovascular Sciences of Ministry of Education, NHC Key Laboratory of Cardiovascular Molecular Biology and Regulatory Peptides, Health Science Center, Peking University, Beijing 100191, China
- China National Clinical Research Center for Neurological Diseases, Tiantan Hospital, Advanced Innovation Center for Human Brain Protection, Capital Medical University, Beijing 100160, China
| | - Hongbing Fu
- Beijing Key Laboratory for Optical Materials and Photonic Devices, Capital Normal University, Beijing 100048, China
- Institute of Molecular Plus, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
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26
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Dankovich TM, Rizzoli SO. Challenges facing quantitative large-scale optical super-resolution, and some simple solutions. iScience 2021; 24:102134. [PMID: 33665555 PMCID: PMC7898072 DOI: 10.1016/j.isci.2021.102134] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022] Open
Abstract
Optical super-resolution microscopy (SRM) has enabled biologists to visualize cellular structures with near-molecular resolution, giving unprecedented access to details about the amounts, sizes, and spatial distributions of macromolecules in the cell. Precisely quantifying these molecular details requires large datasets of high-quality, reproducible SRM images. In this review, we discuss the unique set of challenges facing quantitative SRM, giving particular attention to the shortcomings of conventional specimen preparation techniques and the necessity for optimal labeling of molecular targets. We further discuss the obstacles to scaling SRM methods, such as lengthy image acquisition and complex SRM data analysis. For each of these challenges, we review the recent advances in the field that circumvent these pitfalls and provide practical advice to biologists for optimizing SRM experiments.
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Affiliation(s)
- Tal M. Dankovich
- University Medical Center Göttingen, Institute for Neuro- and Sensory Physiology, Göttingen 37073, Germany
- International Max Planck Research School for Neuroscience, Göttingen, Germany
| | - Silvio O. Rizzoli
- University Medical Center Göttingen, Institute for Neuro- and Sensory Physiology, Göttingen 37073, Germany
- Biostructural Imaging of Neurodegeneration (BIN) Center & Multiscale Bioimaging Excellence Center, Göttingen 37075, Germany
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27
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Storterboom J, Barbiero M, Castelletto S, Gu M. Ground-State Depletion Nanoscopy of Nitrogen-Vacancy Centres in Nanodiamonds. NANOSCALE RESEARCH LETTERS 2021; 16:44. [PMID: 33689036 PMCID: PMC7947094 DOI: 10.1186/s11671-021-03503-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2021] [Accepted: 03/01/2021] [Indexed: 05/05/2023]
Abstract
The negatively charged nitrogen-vacancy ([Formula: see text]) centre in nanodiamonds (NDs) has been recently studied for applications in cellular imaging due to its better photo-stability and biocompatibility if compared to other fluorophores. Super-resolution imaging achieving 20-nm resolution of [Formula: see text] in NDs has been proved over the years using sub-diffraction limited imaging approaches such as single molecule stochastic localisation microscopy and stimulated emission depletion microscopy. Here we show the first demonstration of ground-state depletion (GSD) nanoscopy of these centres in NDs using three beams, a probe beam, a depletion beam and a reset beam. The depletion beam at 638 nm forces the [Formula: see text] centres to the metastable dark state everywhere but in the local minimum, while a Gaussian beam at 594 nm probes the [Formula: see text] centres and a 488-nm reset beam is used to repopulate the excited state. Super-resolution imaging of a single [Formula: see text] centre with a full width at half maximum of 36 nm is demonstrated, and two adjacent [Formula: see text] centres separated by 72 nm are resolved. GSD microscopy is here applied to [Formula: see text] in NDs with a much lower optical power compared to bulk diamond. This work demonstrates the need to control the NDs nitrogen concentration to tailor their application in super-resolution imaging methods and paves the way for studies of [Formula: see text] in NDs' nanoscale interactions.
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Affiliation(s)
- Jelle Storterboom
- Optical Sciences Centre, Faculty of Science, Engineering and Technology, Swinburne University of Technology, PO Box 218, Hawthorn, VIC, 3122, Australia
- Department of Imaging Physics, Delft University of Technology, Delft, The Netherlands
| | | | - Stefania Castelletto
- Optical Sciences Centre, Faculty of Science, Engineering and Technology, Swinburne University of Technology, PO Box 218, Hawthorn, VIC, 3122, Australia
- School of Engineering RMIT University, Bundoora, Australia
| | - Min Gu
- Optical Sciences Centre, Faculty of Science, Engineering and Technology, Swinburne University of Technology, PO Box 218, Hawthorn, VIC, 3122, Australia.
- Laboratory for Artificial-Intelligence Nanophotonics, School of Science, RMIT University, Melbourne, VIC, Australia.
- Centre for Artificial-Intelligence Nanophotonics, School of Optical-Electrical and Computer Engineering, The University of Shanghai for Science and Technology, Shanghai, China.
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28
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Andrian T, Riera R, Pujals S, Albertazzi L. Nanoscopy for endosomal escape quantification. NANOSCALE ADVANCES 2021; 3:10-23. [PMID: 36131870 PMCID: PMC9419860 DOI: 10.1039/d0na00454e] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2020] [Accepted: 10/26/2020] [Indexed: 05/04/2023]
Abstract
The successful cytosolic delivery of nanoparticles is hampered by their endosomal entrapment and degradation. To push forward the smart development of nanoparticles we must reliably detect and quantify their endosomal escape process. However, the current methods employed are not quantitative enough at the nanoscale to achieve this. Nanoscopy is a rapidly evolving field that has developed a diverse set of powerful techniques in the last two decades, opening the door to explore nanomedicine with an unprecedented resolution and specificity. The understanding of key steps in the drug delivery process - such as endosomal escape - would benefit greatly from the implementation of the most recent advances in microscopy. In this review, we provide the latest insights into endosomal escape of nanoparticles obtained by nanoscopy, and we discuss the features that would allow these techniques to make a great impact in the field.
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Affiliation(s)
- Teodora Andrian
- Nanoscopy for Nanomedicine, Institute for Bioengineering of Catalonia Barcelona Spain
| | - Roger Riera
- Department of Biomedical Engineering, Institute for Complex Molecular Systems (ICMS), Eindhoven University of Technology Eindhoven Netherlands
| | - Silvia Pujals
- Nanoscopy for Nanomedicine, Institute for Bioengineering of Catalonia Barcelona Spain
- Department of Electronics and Biomedical Engineering, Faculty of Physics, Universitat de Barcelona Av. Diagonal 647 08028 Barcelona Spain
| | - Lorenzo Albertazzi
- Nanoscopy for Nanomedicine, Institute for Bioengineering of Catalonia Barcelona Spain
- Department of Biomedical Engineering, Institute for Complex Molecular Systems (ICMS), Eindhoven University of Technology Eindhoven Netherlands
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29
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Weber M, Khan TA, Patalag LJ, Bossi M, Leutenegger M, Belov VN, Hell SW. Photoactivatable Fluorophore for Stimulated Emission Depletion (STED) Microscopy and Bioconjugation Technique for Hydrophobic Labels. Chemistry 2021; 27:451-458. [PMID: 33095954 PMCID: PMC7839434 DOI: 10.1002/chem.202004645] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2020] [Indexed: 02/01/2023]
Abstract
The use of photoactivatable dyes in STED microscopy has so far been limited by two-photon activation through the STED beam and by the fact that photoactivatable dyes are poorly solvable in water. Herein, we report ONB-2SiR, a fluorophore that can be both photoactivated in the UV and specifically de-excited by STED at 775 nm. Likewise, we introduce a conjugation and purification protocol to effectively label primary and secondary antibodies with moderately water-soluble dyes. Greatly reducing dye aggregation, our technique provides a defined and tunable degree of labeling, and improves the imaging performance of dye conjugates in general.
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Affiliation(s)
- Michael Weber
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
| | - Taukeer A. Khan
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
| | - Lukas J. Patalag
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
- present address: Stratingh Institute for ChemistryZernike Institute for Advanced MaterialsUniversity of GroningenNijenborgh 49747AGGroningenThe Netherlands
| | - Mariano Bossi
- Department of Optical NanoscopyMax Planck Institute for Medical ResearchJahnstraße 2969120HeidelbergGermany
| | - Marcel Leutenegger
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
| | - Vladimir N. Belov
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
| | - Stefan W. Hell
- Department of NanoBiophotonicsMax Planck Institute for Biophysical ChemistryAm Faßberg 1137077GöttingenGermany
- Department of Optical NanoscopyMax Planck Institute for Medical ResearchJahnstraße 2969120HeidelbergGermany
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30
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Luo F, Qin G, Xia T, Fang X. Single-Molecule Imaging of Protein Interactions and Dynamics. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2020; 13:337-361. [PMID: 32228033 DOI: 10.1146/annurev-anchem-091619-094308] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Live-cell single-molecule fluorescence imaging has become a powerful analytical tool to investigate cellular processes that are not accessible to conventional biochemical approaches. This has greatly enriched our understanding of the behaviors of single biomolecules in their native environments and their roles in cellular events. Here, we review recent advances in fluorescence-based single-molecule bioimaging of proteins in living cells. We begin with practical considerations of the design of single-molecule fluorescence imaging experiments such as the choice of imaging modalities, fluorescent probes, and labeling methods. We then describe analytical observables from single-molecule data and the associated molecular parameters along with examples of live-cell single-molecule studies. Lastly, we discuss computational algorithms developed for single-molecule data analysis.
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Affiliation(s)
- Fang Luo
- Beijing National Research Center for Molecular Sciences, CAS Key Laboratory of Molecule Nanostructure and Nanotechnology, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China;
- Department of Chemistry, University of the Chinese Academy of Sciences, Beijing 100049, China
| | - Gege Qin
- Beijing National Research Center for Molecular Sciences, CAS Key Laboratory of Molecule Nanostructure and Nanotechnology, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China;
- Department of Chemistry, University of the Chinese Academy of Sciences, Beijing 100049, China
| | - Tie Xia
- School of Medicine, Tsinghua University, Beijing 100084, China
| | - Xiaohong Fang
- Beijing National Research Center for Molecular Sciences, CAS Key Laboratory of Molecule Nanostructure and Nanotechnology, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100190, China;
- Department of Chemistry, University of the Chinese Academy of Sciences, Beijing 100049, China
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31
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Sharma R, Singh M, Sharma R. Recent advances in STED and RESOLFT super-resolution imaging techniques. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 231:117715. [PMID: 31748155 DOI: 10.1016/j.saa.2019.117715] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/14/2019] [Revised: 10/15/2019] [Accepted: 10/26/2019] [Indexed: 06/10/2023]
Abstract
Stimulated emission depletion (STED) and reversible saturable optical fluorescence transition (RESOLFT) microscopy are the super-resolution imaging techniques that can acquire nanoscale spatial resolution. The spatial resolution of the other far-field optical microscopic techniques is bound by diffraction limit, however, STED/RESOLFT techniques eliminate the diffraction barrier. These microscopic techniques have taken the limits of optical image resolution down to the nanometer scale and opened new paths for biomedical and nanophosphor research. In this paper, we review the recent advancements of these techniques in the field of nanoscopy using continuous wave (CW) laser sources. Further, we discuss the main limitation of the STED microscopy in terms of essential requirements of higher depletion beam power and photobleaching issues. The RESOLFT microscopic technique can be considered as an alternate technique to overcome limitations of existing STED microscopy. Moreover, the Bessel and Gaussian-Bessel beam STED microscopic techniques are also reviewed to produce deep images with faster scanning of the samples. The organic molecules as well as the fluorescent doped nanoparticles like ZnSe:Mn having characteristics of excited state absorption can be investigated using RESOLFT microscopy.
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Affiliation(s)
- Reena Sharma
- Department of Physics, University Institute of Sciences, Chandigarh University, Mohali, Punjab, 140413, India
| | - Manjot Singh
- Department of Physics, University Institute of Sciences, Chandigarh University, Mohali, Punjab, 140413, India
| | - Rajesh Sharma
- Department of Physics, University Institute of Sciences, Chandigarh University, Mohali, Punjab, 140413, India.
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32
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Hansel CS, Holme MN, Gopal S, Stevens MM. Advances in high-resolution microscopy for the study of intracellular interactions with biomaterials. Biomaterials 2020; 226:119406. [DOI: 10.1016/j.biomaterials.2019.119406] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2019] [Revised: 07/16/2019] [Accepted: 08/01/2019] [Indexed: 12/15/2022]
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33
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Zhang Y, Zhang Q, Chan CH, Li E, Jin J, Wang H. Emission of orbital angular momentum based on spoof localized surface plasmons. OPTICS LETTERS 2019; 44:5735-5738. [PMID: 31774766 DOI: 10.1364/ol.44.005735] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2019] [Accepted: 10/28/2019] [Indexed: 06/10/2023]
Abstract
An approach to producing the orbital angular momentum (OAM) based on spoof localized surface plasmons (spoof LSPs) in microwave frequencies is demonstrated both theoretically and experimentally. The fundamental and high-order modes of spoof LSPs occur when a textured metallic surface is excited with a microstrip line. Two orthogonal modes of spoof LSPs with +90° or -90° phase retardation are superimposed, resulting in a OAM-vortex mode. In the proposed design, two separate feeding ports are employed to excite the orthogonal resonant modes simultaneously, and a hybrid coupler is used to provide the required ±90° phase retardation. By loading a circularly arranged dipole array on the spoof LSPs, the confined surface waves of the spoof LSPs can be converted into radiated vortex waves. To verify this idea, an OAM-mode emitter with indices of ±3 is fabricated and measured. Experimental near-field distributions and far-field radiation patterns show excellent agreement with the simulated results.
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34
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Dong JX, Lee Y, Kirmiz M, Palacio S, Dumitras C, Moreno CM, Sando R, Santana LF, Südhof TC, Gong B, Murray KD, Trimmer JS. A toolbox of nanobodies developed and validated for use as intrabodies and nanoscale immunolabels in mammalian brain neurons. eLife 2019; 8:48750. [PMID: 31566565 PMCID: PMC6785268 DOI: 10.7554/elife.48750] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2019] [Accepted: 09/18/2019] [Indexed: 12/30/2022] Open
Abstract
Nanobodies (nAbs) are small, minimal antibodies that have distinct attributes that make them uniquely suited for certain biomedical research, diagnostic and therapeutic applications. Prominent uses include as intracellular antibodies or intrabodies to bind and deliver cargo to specific proteins and/or subcellular sites within cells, and as nanoscale immunolabels for enhanced tissue penetration and improved spatial imaging resolution. Here, we report the generation and validation of nAbs against a set of proteins prominently expressed at specific subcellular sites in mammalian brain neurons. We describe a novel hierarchical validation pipeline to systematically evaluate nAbs isolated by phage display for effective and specific use as intrabodies and immunolabels in mammalian cells including brain neurons. These nAbs form part of a robust toolbox for targeting proteins with distinct and highly spatially-restricted subcellular localization in mammalian brain neurons, allowing for visualization and/or modulation of structure and function at those sites.
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Affiliation(s)
- Jie-Xian Dong
- Department of Neurobiology, Physiology and Behavior, University of California, Davis, Davis, United States
| | - Yongam Lee
- Department of Neurobiology, Physiology and Behavior, University of California, Davis, Davis, United States
| | - Michael Kirmiz
- Department of Neurobiology, Physiology and Behavior, University of California, Davis, Davis, United States
| | - Stephanie Palacio
- Department of Neurobiology, Physiology and Behavior, University of California, Davis, Davis, United States
| | - Camelia Dumitras
- Department of Neurobiology, Physiology and Behavior, University of California, Davis, Davis, United States
| | - Claudia M Moreno
- Department of Physiology and Membrane Biology, University of California, Davis, Davis, United States.,Department of Physiology and Biophysics, University of Washington, Seattle, United States
| | - Richard Sando
- Department of Molecular and Cellular Physiology, Howard Hughes Medical Institute, Stanford School of Medicine, Stanford, United States
| | - L Fernando Santana
- Department of Physiology and Membrane Biology, University of California, Davis, Davis, United States
| | - Thomas C Südhof
- Department of Molecular and Cellular Physiology, Howard Hughes Medical Institute, Stanford School of Medicine, Stanford, United States
| | - Belvin Gong
- Department of Neurobiology, Physiology and Behavior, University of California, Davis, Davis, United States
| | - Karl D Murray
- Department of Neurobiology, Physiology and Behavior, University of California, Davis, Davis, United States
| | - James S Trimmer
- Department of Neurobiology, Physiology and Behavior, University of California, Davis, Davis, United States.,Department of Physiology and Membrane Biology, University of California, Davis, Davis, United States
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35
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Serrer K, Matt C, Sokolov M, Kacprzak S, Schleicher E, Weber S. Application of commercially available fluorophores as triplet spin probes in EPR spectroscopy. Mol Phys 2019. [DOI: 10.1080/00268976.2019.1608379] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Kerstin Serrer
- Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
| | - Clemens Matt
- Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
| | - Monja Sokolov
- Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
| | - Sylwia Kacprzak
- Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
| | - Erik Schleicher
- Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
| | - Stefan Weber
- Institute of Physical Chemistry, University of Freiburg, Freiburg, Germany
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Pascucci M, Ganesan S, Tripathi A, Katz O, Emiliani V, Guillon M. Compressive three-dimensional super-resolution microscopy with speckle-saturated fluorescence excitation. Nat Commun 2019; 10:1327. [PMID: 30902978 PMCID: PMC6430798 DOI: 10.1038/s41467-019-09297-5] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2018] [Accepted: 02/19/2019] [Indexed: 11/09/2022] Open
Abstract
Nonlinear structured illumination microscopy (nSIM) is an effective approach for super-resolution wide-field fluorescence microscopy with a theoretically unlimited resolution. In nSIM, carefully designed, highly-contrasted illumination patterns are combined with the saturation of an optical transition to enable sub-diffraction imaging. While the technique proved useful for two-dimensional imaging, extending it to three-dimensions is challenging due to the fading of organic fluorophores under intense cycling conditions. Here, we present a compressed sensing approach that allows 3D sub-diffraction nSIM of cultured cells by saturating fluorescence excitation. Exploiting the natural orthogonality of speckles at different axial planes, 3D probing of the sample is achieved by a single two-dimensional scan. Fluorescence contrast under saturated excitation is ensured by the inherent high density of intensity minima associated with optical vortices in polarized speckle patterns. Compressed speckle microscopy is thus a simple approach that enables 3D super-resolved nSIM imaging with potentially considerably reduced acquisition time and photobleaching.
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Affiliation(s)
- M Pascucci
- Neurophotonics Laboratory UMR8250, University Paris Descartes, 47 rue des Saints-Pères, 75270, Paris, France
| | - S Ganesan
- Neurophotonics Laboratory UMR8250, University Paris Descartes, 47 rue des Saints-Pères, 75270, Paris, France
| | - A Tripathi
- Department of Applied Physics, The Hebrew University of Jerusalem, Jerusalem, 9190401, Israel.,Department of Physics, Indian Institute of Technology, Delhi, 110016, India
| | - O Katz
- Department of Applied Physics, The Hebrew University of Jerusalem, Jerusalem, 9190401, Israel
| | - V Emiliani
- Neurophotonics Laboratory UMR8250, University Paris Descartes, 47 rue des Saints-Pères, 75270, Paris, France
| | - M Guillon
- Neurophotonics Laboratory UMR8250, University Paris Descartes, 47 rue des Saints-Pères, 75270, Paris, France.
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37
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Huszka G, Gijs MA. Super-resolution optical imaging: A comparison. MICRO AND NANO ENGINEERING 2019. [DOI: 10.1016/j.mne.2018.11.005] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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38
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Ross AM, Mc Nulty D, O'Dwyer C, Grabrucker AM, Cronin P, Mulvihill JJ. Standardization of research methods employed in assessing the interaction between metallic-based nanoparticles and the blood-brain barrier: Present and future perspectives. J Control Release 2019; 296:202-224. [DOI: 10.1016/j.jconrel.2019.01.022] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2018] [Revised: 01/16/2019] [Accepted: 01/17/2019] [Indexed: 01/31/2023]
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39
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Kohle FFE, Hinckley JA, Li S, Dhawan N, Katt WP, Erstling JA, Werner-Zwanziger U, Zwanziger J, Cerione RA, Wiesner UB. Amorphous Quantum Nanomaterials. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2019; 31:e1806993. [PMID: 30516861 PMCID: PMC6440210 DOI: 10.1002/adma.201806993] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/29/2018] [Revised: 11/08/2018] [Indexed: 05/30/2023]
Abstract
In quantum materials, macroscopic behavior is governed in nontrivial ways by quantum phenomena. This is usually achieved by exquisite control over atomic positions in crystalline solids. Here, it is demonstrated that the use of disordered glassy materials provides unique opportunities to tailor quantum material properties. By borrowing ideas from single-molecule spectroscopy, single delocalized π-electron dye systems are isolated in relatively rigid ultrasmall (<10 nm diameter) amorphous silica nanoparticles. It is demonstrated that chemically tuning the local amorphous silica environment around the dye over a range of compositions enables exquisite control over dye quantum behavior, leading to efficient probes for photodynamic therapy (PDT) and stochastic optical reconstruction microscopy (STORM). The results suggest that efficient fine-tuning of light-induced quantum behavior mediated via effects like spin-orbit coupling can be effectively achieved by systematically varying averaged local environments in glassy amorphous materials as opposed to tailoring well-defined neighboring atomic lattice positions in crystalline solids. The resulting nanoprobes exhibit features proven to enable clinical translation.
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Affiliation(s)
- Ferdinand F E Kohle
- Department of Materials Science and Engineering, Cornell University, Ithaca, NY, 14853, USA
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA
| | - Joshua A Hinckley
- Department of Materials Science and Engineering, Cornell University, Ithaca, NY, 14853, USA
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA
| | - Songying Li
- Department of Materials Science and Engineering, Cornell University, Ithaca, NY, 14853, USA
| | - Nikhil Dhawan
- Department of Materials Science and Engineering, Cornell University, Ithaca, NY, 14853, USA
| | - William P Katt
- Department of Molecular Medicine, Cornell University, Ithaca, NY, 14853, USA
| | - Jacob A Erstling
- Department of Biomedical Engineering, Cornell University, Ithaca, NY, 14853, USA
| | | | - Josef Zwanziger
- Department of Chemistry, Dalhousie University, Halifax, Nova Scotia, B3H 4R2, Canada
| | - Richard A Cerione
- Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY, 14853, USA
- Department of Molecular Medicine, Cornell University, Ithaca, NY, 14853, USA
| | - Ulrich B Wiesner
- Department of Materials Science and Engineering, Cornell University, Ithaca, NY, 14853, USA
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40
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Sahl SJ, Schönle A, Hell SW. Fluorescence Microscopy with Nanometer Resolution. SPRINGER HANDBOOK OF MICROSCOPY 2019. [DOI: 10.1007/978-3-030-00069-1_22] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
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41
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Mamuti R, Araki S, Nishida S, Miyamoto K, Omatsu T. Tunable near-infrared optical vortex parametric laser with versatile orbital angular momentum states. APPLIED OPTICS 2018; 57:10004-10008. [PMID: 30645264 DOI: 10.1364/ao.57.010004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/28/2018] [Accepted: 10/29/2018] [Indexed: 06/09/2023]
Abstract
We demonstrate a tunable vortex laser with versatile orbital angular momentum (OAM) states based on a singly resonant optical parametric oscillator formed of a noncritical phase-matching LiB3O5 crystal. The selective generation of a signal (idler) output with three OAMs, including an upconverted (negative) OAM, is achieved simply by appropriate shortening (or extending) of the cavity. The compact cavity configuration also allows for the generation of the signal (idler) output with various OAMs by simply tuning the signal wavelength. The vortex output is tuned within the wavelength region of 0.74 to 1.84 μm with a maximum pulse energy of 2.16 mJ from a pump energy of 9.3 mJ.
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42
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Zhao M, Nicovich PR, Janco M, Deng Q, Yang Z, Ma Y, Böcking T, Gaus K, Gooding JJ. Ultralow- and Low-Background Surfaces for Single-Molecule Localization Microscopy of Multistep Biointerfaces for Single-Molecule Sensing. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2018; 34:10012-10018. [PMID: 30067032 DOI: 10.1021/acs.langmuir.8b01487] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Single-molecule localization microscopy (SMLM) has created the opportunity of pushing fluorescence microscopy from being a biological imaging tool to a surface characterization and possibly even a quantitative analytical tool. The latter could be achieved by molecular counting using pointillist SMLM data sets. However, SMLM is especially sensitive to background fluorescent signals, which influences any subsequent analysis. Therefore, fabricating sensing surfaces that resist nonspecific adsorption of proteins, even after multiple modification steps, has become paramount. Herein is reported two different ways to modify surfaces: dichlorodimethylsilane-biotinylated bovine serum albumin-Tween-20 (DbT20) and poly-l-lysine grafted polyethylene glycol (PLL-PEG) mixed with biotinylated PLL-PEG (PLL-PEG/PEGbiotin). The results show that the ability to resist nonspecific adsorption of DbT20 surfaces deteriorates with an increase in the number of modification steps required after the addition of the DbT20, which limits the applicability of this surface for SMLM. As such, a new surface for SMLM that employs PLL-PEG/PEGbiotin was developed that exhibits ultralow amounts of nonspecific protein adsorption even after many modification steps. The utility of the surface was demonstrated for human influenza hemagglutinin-tagged mEos2, which was directly pulled down from cell lysates onto the PLL-PEG/PEGbiotin surface. The results strongly indicated that the PLL-PEG/PEGbiotin surface satisfies the criteria of SMLM imaging of a negligible background signal and negligible nonspecific adsorption.
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43
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Monolayer surface chemistry enables 2-colour single molecule localisation microscopy of adhesive ligands and adhesion proteins. Nat Commun 2018; 9:3320. [PMID: 30127420 PMCID: PMC6102261 DOI: 10.1038/s41467-018-05837-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2017] [Accepted: 07/30/2018] [Indexed: 12/20/2022] Open
Abstract
Nanofabricated and nanopatterned surfaces have revealed the sensitivity of cell adhesion to nanoscale variations in the spacing of adhesive ligands such as the tripeptide arginine-glycine-aspartic acid (RGD). To date, surface characterisation and cell adhesion are often examined in two separate experiments so that the localisation of ligands and adhesion proteins cannot be combined in the same image. Here we developed self-assembled monolayer chemistry for indium tin oxide (ITO) surfaces for single molecule localisation microscopy (SMLM). Cell adhesion and spreading were sensitive to average RGD spacing. At low average RGD spacing, a threshold exists of 0.8 RGD peptides per µm2 that tether cells to the substratum but this does not enable formation of focal adhesions. These findings suggest that cells can sense and engage single adhesive ligands but ligand clustering is required for cell spreading. Thus, our data reveal subtle differences in adhesion biology that may be obscured in ensemble measurements. To date, the precise localisation of ligands and adhesion proteins are determined in two parallel characterization setups. Here, the authors report a self-assembled monolayer chemistry for indium tin oxide surfaces allowing single molecule localisation microscopy (SMLM) imaging of ligands and adhesion proteins in a single experiment.
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Arai Y, Takauchi H, Ogami Y, Fujiwara S, Nakano M, Matsuda T, Nagai T. Spontaneously Blinking Fluorescent Protein for Simple Single Laser Super-Resolution Live Cell Imaging. ACS Chem Biol 2018; 13:1938-1943. [PMID: 29963852 DOI: 10.1021/acschembio.8b00200] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Super-resolution imaging techniques based on single molecule localization microscopy (SMLM) broke the diffraction limit of optical microscopy in living samples with the aid of photoswitchable fluorescent probes and intricate microscopy systems. Here, we developed a fluorescent protein, SPOON, which can be switched off by excitation light illumination and switched on by thermally induced dehydration, resulting in an apparent spontaneous blinking behavior. This unique property of SPOON provides a simple SMLM-based super-resolution imaging platform which requires only a single 488 nm laser.
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Affiliation(s)
- Yoshiyuki Arai
- The Institute of Scientific and Industrial Research, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
- Department of Biotechnology, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Hiroki Takauchi
- Department of Biotechnology, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Yuhei Ogami
- Department of Biotechnology, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Satsuki Fujiwara
- The Institute of Scientific and Industrial Research, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
| | - Masahiro Nakano
- The Institute of Scientific and Industrial Research, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
- Department of Biotechnology, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Tomoki Matsuda
- The Institute of Scientific and Industrial Research, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
- Department of Biotechnology, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Takeharu Nagai
- The Institute of Scientific and Industrial Research, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
- Department of Biotechnology, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
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45
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Xi Z, Urbach HP. Retrieving the Size of Deep-Subwavelength Objects via Tunable Optical Spin-Orbit Coupling. PHYSICAL REVIEW LETTERS 2018; 120:253901. [PMID: 29979065 DOI: 10.1103/physrevlett.120.253901] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/01/2018] [Indexed: 06/08/2023]
Abstract
We propose a scheme to retrieve the size parameters of a nanoparticle on a glass substrate at a scale much smaller than the wavelength. This is achieved by illuminating the particle using two plane waves to create rich and nontrivial local polarization distributions, and observing the far-field scattering pattern into the substrate. By using this illumination to control the induced complex dipole moment, the exponential decay of power radiated into the supercritical region, as well as directional scattering due to spin-orbit coupling can be exploited to retrieve the particle's shape, size, and position directly from the far-field scattering with high sensitivity and without the need for a complicated and time-consuming optimization algorithm. Our method brings about a far-field superresolution nanometrology scheme based on the interaction of vectorial light with nanoparticles.
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Affiliation(s)
- Zheng Xi
- Optics Reseach Group, Delft University of Technology, Department of Imaging Physics, Lorentzweg 1, 2628CJ Delft, The Netherlands
| | - H P Urbach
- Optics Reseach Group, Delft University of Technology, Department of Imaging Physics, Lorentzweg 1, 2628CJ Delft, The Netherlands
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46
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Hu C, Chen Q, Chen F, Gfroerer TH, Wanlass MW, Zhang Y. Overcoming diffusion-related limitations in semiconductor defect imaging with phonon-plasmon-coupled mode Raman scattering. LIGHT, SCIENCE & APPLICATIONS 2018; 7:23. [PMID: 30839595 PMCID: PMC6106988 DOI: 10.1038/s41377-018-0016-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2018] [Revised: 03/23/2018] [Accepted: 03/26/2018] [Indexed: 06/01/2023]
Abstract
Carrier diffusion is of paramount importance in many semiconductor devices, such as solar cells, photodetectors, and power electronics. Structural defects prevent such devices from reaching their full performance potential. Although a large carrier diffusion length indicates high material quality, it also implies increased carrier depletion by an individual extended defect (for instance, a dislocation) and obscures the spatial resolution of neighboring defects using optical techniques. For commonly utilized photoluminescence (PL) imaging, the spatial resolution is dictated by the diffusion length rather than by the laser spot size, no matter the spot is at or below the diffraction limit. Here, we show how Raman imaging of the LO phonon-plasmon-coupled mode can be used to recover the intrinsic spatial resolution of the optical system, and we demonstrate the effectiveness of the technique by imaging defects in GaAs with diffraction-limited optics, achieving a 10-fold improvement in resolution. Furthermore, by combining Raman and PL imaging, we can independently and simultaneously determine the spatial dependence of the electron density, hole density, radiative recombination rate, and non-radiative recombination rate near a dislocation-like defect, which has not been possible using other techniques.
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Affiliation(s)
- Changkui Hu
- University of North Carolina at Charlotte, Charlotte, NC 28223 USA
- Wuhan University of Technology, Wuhan, Hubei 430070 China
| | - Qiong Chen
- University of North Carolina at Charlotte, Charlotte, NC 28223 USA
| | - Fengxiang Chen
- University of North Carolina at Charlotte, Charlotte, NC 28223 USA
- Wuhan University of Technology, Wuhan, Hubei 430070 China
| | | | - M. W. Wanlass
- National Renewable Energy Laboratory, Golden, CO 80401 USA
| | - Yong Zhang
- University of North Carolina at Charlotte, Charlotte, NC 28223 USA
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47
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Huang K, Qin F, Liu H, Ye H, Qiu CW, Hong M, Luk'yanchuk B, Teng J. Planar Diffractive Lenses: Fundamentals, Functionalities, and Applications. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2018; 30:e1704556. [PMID: 29672949 DOI: 10.1002/adma.201704556] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2017] [Revised: 12/17/2017] [Indexed: 05/09/2023]
Abstract
Traditional objective lenses in modern microscopy, based on the refraction of light, are restricted by the Rayleigh diffraction limit. The existing methods to overcome this limit can be categorized into near-field (e.g., scanning near-field optical microscopy, superlens, microsphere lens) and far-field (e.g., stimulated emission depletion microscopy, photoactivated localization microscopy, stochastic optical reconstruction microscopy) approaches. However, they either operate in the challenging near-field mode or there is the need to label samples in biology. Recently, through manipulation of the diffraction of light with binary masks or gradient metasurfaces, some miniaturized and planar lenses have been reported with intriguing functionalities such as ultrahigh numerical aperture, large depth of focus, and subdiffraction-limit focusing in far-field, which provides a viable solution for the label-free superresolution imaging. Here, the recent advances in planar diffractive lenses (PDLs) are reviewed from a united theoretical account on diffraction-based focusing optics, and the underlying physics of nanofocusing via constructive or destructive interference is revealed. Various approaches of realizing PDLs are introduced in terms of their unique performances and interpreted by using optical aberration theory. Furthermore, a detailed tutorial about applying these planar lenses in nanoimaging is provided, followed by an outlook regarding future development toward practical applications.
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Affiliation(s)
- Kun Huang
- Institute of Materials Research and Engineering, Agency for Science, Technology and Research (A*STAR), 2 Fusionopolis Way, Innovis #08-03, Singapore, 138634, Singapore
- Department of Optics and Optical Engineering, University of Science and Technology of China, Hefei, Anhui, 230026, China
| | - Fei Qin
- Guangdong Provincial Key Laboratory of Optical Fiber Sensing and Communications, Institute of Photonics Technology, Jinan University, 601 Huangpu Avenue West, Guangzhou, 510632, China
| | - Hong Liu
- Institute of Materials Research and Engineering, Agency for Science, Technology and Research (A*STAR), 2 Fusionopolis Way, Innovis #08-03, Singapore, 138634, Singapore
| | - Huapeng Ye
- Department of Electrical and Computer Engineering, National University of Singapore, 4 Engineering Drive 3, Singapore, 117576, Singapore
| | - Cheng-Wei Qiu
- Department of Electrical and Computer Engineering, National University of Singapore, 4 Engineering Drive 3, Singapore, 117576, Singapore
| | - Minghui Hong
- Department of Electrical and Computer Engineering, National University of Singapore, 4 Engineering Drive 3, Singapore, 117576, Singapore
| | - Boris Luk'yanchuk
- Data Storage Institute, Agency for Science, Technology and Research (A*STAR), 2 Fusionopolis Way, Innovis #08-01, Singapore, 138634, Singapore
- Division of Physics and Applied Physics, School of Physical and Mathematical Sciences, Nanyang Technological University, Singapore, 637371, Singapore
- Faculty of Physics, Lomonosov Moscow State University, Moscow, 119991, Russia
| | - Jinghua Teng
- Institute of Materials Research and Engineering, Agency for Science, Technology and Research (A*STAR), 2 Fusionopolis Way, Innovis #08-03, Singapore, 138634, Singapore
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Vangindertael J, Camacho R, Sempels W, Mizuno H, Dedecker P, Janssen KPF. An introduction to optical super-resolution microscopy for the adventurous biologist. Methods Appl Fluoresc 2018; 6:022003. [DOI: 10.1088/2050-6120/aaae0c] [Citation(s) in RCA: 124] [Impact Index Per Article: 20.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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50
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Byrdin M, Duan C, Bourgeois D, Brettel K. A Long-Lived Triplet State Is the Entrance Gateway to Oxidative Photochemistry in Green Fluorescent Proteins. J Am Chem Soc 2018; 140:2897-2905. [PMID: 29394055 DOI: 10.1021/jacs.7b12755] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
Though ubiquitously used as selective fluorescence markers in cellular biology, fluorescent proteins (FPs) still have not disclosed all of their surprising properties. One important issue, notably for single-molecule applications, is the nature of the triplet state, suggested to be the starting point for many possible photochemical reactions leading to phenomena such as blinking or bleaching. Here, we applied transient absorption spectroscopy to characterize dark states in the prototypical enhanced green fluorescent protein (EGFP) of hydrozoan origin and, for comparison, in IrisFP, a representative phototransformable FP of anthozoan origin. We identified a long-lived (approximately 5 ms) dark state that is formed with a quantum yield of approximately 1% and has pronounced absorption throughout the visible-NIR range (peak at around 900 nm). Detection of phosphorescence emission with identical kinetics and excitation spectrum allowed unambiguous identification of this state as the first excited triplet state of the deprotonated chromophore. This triplet state was further characterized by determining its phosphorescence emission spectrum, the temperature dependence of its decay kinetics and its reactivity toward oxygen and electron acceptors and donors. It is suggested that it is this triplet state that lies at the origin of oxidative photochemistry in green FPs, leading to phenomena such as so-called "oxidative redding", "primed photoconversion", or, in a manner similar to that previously observed for organic dyes, redox induced blinking control with the reducing and oxidizing system ("ROXS").
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Affiliation(s)
- Martin Byrdin
- Institut de Biologie Structurale, Université Grenoble Alpes, CEA, CNRS , 38044 Grenoble, France
| | - Chenxi Duan
- Institut de Biologie Structurale, Université Grenoble Alpes, CEA, CNRS , 38044 Grenoble, France
| | - Dominique Bourgeois
- Institut de Biologie Structurale, Université Grenoble Alpes, CEA, CNRS , 38044 Grenoble, France
| | - Klaus Brettel
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ. Paris Sud, Université Paris-Saclay , F-91198 Gif-sur-Yvette cedex, France
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