1
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Yuzu K, Lin CY, Yi PW, Huang CH, Masuhara H, Chatani E. Spatiotemporal formation of a single liquid-like condensate and amyloid fibrils of α-synuclein by optical trapping at solution surface. Proc Natl Acad Sci U S A 2024; 121:e2402162121. [PMID: 39292741 DOI: 10.1073/pnas.2402162121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2024] [Accepted: 08/14/2024] [Indexed: 09/20/2024] Open
Abstract
Liquid-like protein condensates have recently attracted much attention due to their critical roles in biological phenomena. They typically show high fluidity and reversibility for exhibiting biological functions, while occasionally serving as sites for the formation of amyloid fibrils. To comprehend the properties of protein condensates that underlie biological function and pathogenesis, it is crucial to study them at the single-condensate level; however, this is currently challenging due to a lack of applicable methods. Here, we demonstrate that optical trapping is capable of inducing the formation of a single liquid-like condensate of α-synuclein in a spatiotemporally controlled manner. The irradiation of tightly focused near-infrared laser at an air/solution interface formed a condensate under conditions coexisting with polyethylene glycol. The fluorescent dye-labeled imaging showed that the optically induced condensate has a gradient of protein concentration from the center to the edge, suggesting that it is fabricated through optical pumping-up of the α-synuclein clusters and the expansion along the interface. Furthermore, Raman spectroscopy and thioflavin T fluorescence analysis revealed that continuous laser irradiation induces structural transition of protein molecules inside the condensate to β-sheet rich structure, ultimately leading to the condensate deformation and furthermore, the formation of amyloid fibrils. These observations indicate that optical trapping is a powerful technique for examining the microscopic mechanisms of condensate appearance and growth, and furthermore, subsequent aging leading to amyloid fibril formation.
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Affiliation(s)
- Keisuke Yuzu
- Department of Chemistry, Graduate School of Science, Kobe University, Kobe 657-8501, Japan
| | - Ching-Yang Lin
- Department of Applied Chemistry, National Yang Ming Chiao Tung University, Hsinchu 300093, Taiwan
| | - Po-Wei Yi
- Department of Applied Chemistry, National Yang Ming Chiao Tung University, Hsinchu 300093, Taiwan
| | - Chih-Hao Huang
- Department of Applied Chemistry, National Yang Ming Chiao Tung University, Hsinchu 300093, Taiwan
| | - Hiroshi Masuhara
- Department of Applied Chemistry, National Yang Ming Chiao Tung University, Hsinchu 300093, Taiwan
| | - Eri Chatani
- Department of Chemistry, Graduate School of Science, Kobe University, Kobe 657-8501, Japan
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2
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Kume D, Kozawa Y, Kawakami R, Ishii H, Watakabe Y, Uesugi Y, Imamura T, Nemoto T, Sato S. Graded arc beam in light needle microscopy for axially resolved, rapid volumetric imaging without nonlinear processes. OPTICS EXPRESS 2024; 32:7289-7306. [PMID: 38439413 DOI: 10.1364/oe.516437] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2023] [Accepted: 02/06/2024] [Indexed: 03/06/2024]
Abstract
High-speed three-dimensional (3D) imaging is essential for revealing the structure and functions of biological specimens. Confocal laser scanning microscopy has been widely employed for this purpose. However, it requires a time-consuming image-stacking procedure. As a solution, we previously developed light needle microscopy using a Bessel beam with a wavefront-engineered approach [Biomed. Opt. Express13, 1702 (2022)10.1364/BOE.449329]. However, this method applies only to multiphoton excitation microscopy because of the requirement to reduce the sidelobes of the Bessel beam. Here, we introduce a beam that produces a needle spot while eluding the intractable artifacts due to the sidelobes. This beam can be adopted even in one-photon excitation fluorescence 3D imaging. The proposed method can achieve real-time, rapid 3D observation of 200-nm particles in water at a rate of over 50 volumes per second. In addition, fine structures, such as the spines of neurons in fixed mouse brain tissue, can be visualized in 3D from a single raster scan of the needle spot. The proposed method can be applied to various modalities in biological imaging, enabling rapid 3D image acquisition.
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3
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Kudo T, Louis B, Sotome H, Chen JK, Ito S, Miyasaka H, Masuhara H, Hofkens J, Bresolí-Obach R. Gaining control on optical force by the stimulated-emission resonance effect. Chem Sci 2023; 14:10087-10095. [PMID: 37772121 PMCID: PMC10530829 DOI: 10.1039/d3sc01927f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2023] [Accepted: 08/18/2023] [Indexed: 09/30/2023] Open
Abstract
The resonance between an electronic transition of a micro/nanoscale object and an incident photon flux can modify the radiation force exerted on that object, especially at an interface. It has been theoretically proposed that a non-linear stimulated emission process can also induce an optical force, however its direction will be opposite to conventional photon scattering/absorption processes. In this work, we experimentally and theoretically demonstrate that a stimulated emission process can induce a repulsive pulling optical force on a single trapped dye-doped particle. Moreover, we successfully integrate both attractive pushing (excited state absorption) and repulsive pulling (stimulated emission) resonance forces to control the overall exerted optical force on an object, validating the proposed non-linear optical resonance theory. Indeed, the results presented here will enable the optical manipulation of the exerted optical force with exquisite control and ultimately enable single particle manipulation.
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Affiliation(s)
- Tetsuhiro Kudo
- Laser Science Laboratory, Toyota Technological Institute Hisakata, Tempaku-ku Nagoya 468-8511 Japan
| | - Boris Louis
- Laboratory for Photochemistry and Spectroscopy, Division for Molecular Imaging and Photonics, Department of Chemistry, Katholieke Universiteit Leuven Belgium
- Division of Chemical Physics and NanoLund, Lund University P.O. Box 124 Lund Sweden
| | - Hikaru Sotome
- Division of Frontier Materials Science and Center for Promotion of Advanced Interdisciplinary Research, Osaka University Toyonaka Osaka 560-8531 Japan
| | - Jui-Kai Chen
- Laboratory for Photochemistry and Spectroscopy, Division for Molecular Imaging and Photonics, Department of Chemistry, Katholieke Universiteit Leuven Belgium
| | - Syoji Ito
- Division of Frontier Materials Science and Center for Promotion of Advanced Interdisciplinary Research, Osaka University Toyonaka Osaka 560-8531 Japan
- Research Institute for Light-induced Acceleration System (RILACS), Osaka Metropolitan University 1-2, Gakuen-cho, Naka-ku Sakai Osaka 599-8570 Japan
| | - Hiroshi Miyasaka
- Division of Frontier Materials Science and Center for Promotion of Advanced Interdisciplinary Research, Osaka University Toyonaka Osaka 560-8531 Japan
| | - Hiroshi Masuhara
- Department of Applied Chemistry, College of Science, National Yang Ming Chiao Tung University Hsinchu Taiwan
- Center for Emergent Functional Matter Science, National Yang Ming Chiao Tung University Hsinchu Taiwan
| | - Johan Hofkens
- Laboratory for Photochemistry and Spectroscopy, Division for Molecular Imaging and Photonics, Department of Chemistry, Katholieke Universiteit Leuven Belgium
- Max Planck Institute for Polymer Research Mainz 55128 Germany
| | - Roger Bresolí-Obach
- Laboratory for Photochemistry and Spectroscopy, Division for Molecular Imaging and Photonics, Department of Chemistry, Katholieke Universiteit Leuven Belgium
- AppLightChem, Institut Químic de Sarrià, Universitat Ramon Llull Barcelona Catalunya Spain
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4
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Louis B, Huang CH, Camacho R, Scheblykin IG, Sugiyama T, Kudo T, Melendez M, Delgado-Buscalioni R, Masuhara H, Hofkens J, Bresoli-Obach R. Unravelling 3D Dynamics and Hydrodynamics during Incorporation of Dielectric Particles to an Optical Trapping Site. ACS NANO 2023; 17:3797-3808. [PMID: 36800201 PMCID: PMC10623636 DOI: 10.1021/acsnano.2c11753] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Accepted: 02/14/2023] [Indexed: 06/18/2023]
Abstract
Mapping of the spatial and temporal motion of particles inside an optical field is critical for understanding and further improvement of the 3D spatio-temporal control over their optical trapping dynamics. However, it is not trivial to capture the 3D motion, and most imaging systems only capture a 2D projection of the 3D motion, in which the information about the axial movement is not directly available. In this work, we resolve the 3D incorporation trajectories of 200 nm fluorescent polystyrene particles in an optical trapping site under different optical experimental conditions using a recently developed widefield multiplane microscope (imaging volume of 50 × 50 × 4 μm3). The particles are gathered at the focus following some preferential 3D channels that show a shallow cone distribution. We demonstrate that the radial and the axial flow speed components depend on the axial distance from the focus, which is directly related to the scattering/gradient optical forces. While particle velocities and trajectories are mainly determined by the trapping laser profile, they cannot be completely explained without considering collective effects resulting from hydrodynamic forces.
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Affiliation(s)
- Boris Louis
- Molecular
Imaging and Photonics, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Leuven 3001, Belgium
- Center
for Cellular Imaging, Core Facilities, the Sahlgrenska Academy, University of Gothenburg, Medicinaregatan 5A-7A, Box 413, Gothenburg 40530, Sweden
| | - Chih-Hao Huang
- Department
of Applied Chemistry, National Yang Ming
Chiao Tung University, 1001 Ta Hsueh Road, Hsinchu 300093, Taiwan
| | - Rafael Camacho
- Center
for Cellular Imaging, Core Facilities, the Sahlgrenska Academy, University of Gothenburg, Medicinaregatan 5A-7A, Box 413, Gothenburg 40530, Sweden
| | - Ivan G. Scheblykin
- Division
of Chemical Physics and NanoLund, Lund University, Kemicentrum Naturvetarvägen
16, P.O. Box 124, Lund 22100, Sweden
| | - Teruki Sugiyama
- Department
of Applied Chemistry, National Yang Ming
Chiao Tung University, 1001 Ta Hsueh Road, Hsinchu 300093, Taiwan
- Division
of Materials Science, Nara Institute of
Science and Technology, 8916-5 Takayamacho, Ikoma, Nara 630-0101, Japan
| | - Tetsuhiro Kudo
- Department
of Applied Chemistry, National Yang Ming
Chiao Tung University, 1001 Ta Hsueh Road, Hsinchu 300093, Taiwan
| | - Marc Melendez
- Departamento
de Física Teórica de la Materia Condensada, Institut
for Condensed Matter (IFIMAC), Universidad
Autónoma de Madrid, Campus de Cantoblanco, Madrid 28049, Spain
| | - Rafael Delgado-Buscalioni
- Departamento
de Física Teórica de la Materia Condensada, Institut
for Condensed Matter (IFIMAC), Universidad
Autónoma de Madrid, Campus de Cantoblanco, Madrid 28049, Spain
| | - Hiroshi Masuhara
- Department
of Applied Chemistry, National Yang Ming
Chiao Tung University, 1001 Ta Hsueh Road, Hsinchu 300093, Taiwan
- Center
for Emergent Functional Matter Science, National Yang Ming Chiao Tung University, 1001 Ta Hsueh Road, Hsinchu 300093, Taiwan
| | - Johan Hofkens
- Molecular
Imaging and Photonics, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Leuven 3001, Belgium
- Max
Planck Institute for Polymer Research, Ackermannweg 10, Mainz 55128, Germany
| | - Roger Bresoli-Obach
- Molecular
Imaging and Photonics, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Leuven 3001, Belgium
- AppLightChem,
Institut Químic de Sarrià, Universitat Ramon Llull, Via Augusta 390, Barcelona, Catalunya 08017, Spain
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5
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de la Cruz-Martínez F, Bresolí-Obach R, Bravo I, Alonso-Moreno C, Hermida-Merino D, Hofkens J, Lara-Sánchez A, Castro-Osma JA, Martín C. Unexpected luminescence of non-conjugated biomass-based polymers: new approach in photothermal imaging. J Mater Chem B 2023; 11:316-324. [PMID: 36353924 DOI: 10.1039/d2tb02033e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
Population growth, depletion of world resources and persistent toxic chemical production underline the need to seek new smart materials from inexpensive, biodegradable, and renewable feedstocks. Hence, "metal-free" ring-opening copolymerization to convert biomass carvone-based monomers into non-conventional luminescent biopolymers is considered a sustainable approach to achieve these goals. The non-conventional emission was studied in terms of steady-state and time-resolved spectroscopy in order to unravel the structure-properties for different carvone-based copolymers. The results highlighted the importance of the final copolymer folding structure as well as its environment in luminescent behavior (cluster-triggered emission). In all cases, their luminescent behavior is sensitive to small temperature fluctuations (where the minimum detected temperature is Tm ∼ 2 °C and relative sensitivity is Sr ∼ 6% °C) even at the microscopic scale, which endows these materials a great potential as thermosensitive smart polymers for photothermal imaging.
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Affiliation(s)
- Felipe de la Cruz-Martínez
- Departamento de Química Inorgánica, Orgánica y Bioquímica-Centro de Innovación en Química Avanzada (ORFEO-CINQA), Facultad de Ciencias y Tecnologías Químicas, Universidad de Castilla-la Mancha, Avda. Camilo José Cela, 10, Ciudad Real 13071, Spain.
| | - Roger Bresolí-Obach
- Chem&Tech - Molecular Imaging and Photonics, KU Leuven, C/Celestijnenlaan 200F, Leuven 3001, Belgium.,AppLightChem, Institut Quimic de Sarria, Universitat Ramon Lull, Via Augusta 390, Barcelona 08007, Catalunya, Spain
| | - Iván Bravo
- Departamento de Química Física, Facultad de Farmacia, Universidad de Castilla-la Mancha, Avda. Dr. José María Sánchez Ibáñez, s/n, Albacete 02071, Spain.
| | - Carlos Alonso-Moreno
- Departamento de Química Inorgánica, Orgánica y Bioquímica-Centro de Innovación en Química Avanzada (ORFEO-CINQA), Facultad de Farmacia, Universidad de Castilla-la Mancha, Avda. Dr. José María Sánchez Ibáñez, s/n, Albacete 02071, Spain.
| | - Daniel Hermida-Merino
- CINBIO, Departamento de Física Aplicada, Universidade de Vigo, Campus Lagoas-Marcosende, Vigo 36310, Spain
| | - Johan Hofkens
- Chem&Tech - Molecular Imaging and Photonics, KU Leuven, C/Celestijnenlaan 200F, Leuven 3001, Belgium
| | - Agustín Lara-Sánchez
- Departamento de Química Inorgánica, Orgánica y Bioquímica-Centro de Innovación en Química Avanzada (ORFEO-CINQA), Facultad de Ciencias y Tecnologías Químicas, Universidad de Castilla-la Mancha, Avda. Camilo José Cela, 10, Ciudad Real 13071, Spain.
| | - José A Castro-Osma
- Departamento de Química Inorgánica, Orgánica y Bioquímica-Centro de Innovación en Química Avanzada (ORFEO-CINQA), Facultad de Farmacia, Universidad de Castilla-la Mancha, Avda. Dr. José María Sánchez Ibáñez, s/n, Albacete 02071, Spain.
| | - Cristina Martín
- Chem&Tech - Molecular Imaging and Photonics, KU Leuven, C/Celestijnenlaan 200F, Leuven 3001, Belgium.,Departamento de Química Física, Facultad de Farmacia, Universidad de Castilla-la Mancha, Avda. Dr. José María Sánchez Ibáñez, s/n, Albacete 02071, Spain.
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6
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Van Lommel R, Van Hooste J, Vandaele J, Steurs G, Van der Donck T, De Proft F, Rocha S, Sakellariou D, Alonso M, De Borggraeve WM. Does Supramolecular Gelation Require an External Trigger? Gels 2022; 8:gels8120813. [PMID: 36547337 PMCID: PMC9778329 DOI: 10.3390/gels8120813] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2022] [Revised: 11/23/2022] [Accepted: 12/06/2022] [Indexed: 12/14/2022] Open
Abstract
The supramolecular gelation of small molecules is typically preceded by an external stimulus to trigger the self-assembly. The need for this trigger stems from the metastable nature of most supramolecular gels and can limit their applicability. Herein, we present a small urea-based molecule that spontaneously forms a stable hydrogel by simple mixing without the addition of an external trigger. Single particle tracking experiments and observations made from scanning electron microscopy indicated that triggerless gelation occurred in a similar fashion as the archetypical heat-triggered gelation. These results could stimulate the search for other supramolecular hydrogels that can be obtained by simple mixing. Furthermore, the mechanism of the heat-triggered supramolecular gelation was elucidated by a combination of molecular dynamics simulations and quantitative NMR experiments. Surprisingly, hydrogelation seemingly occurs via a stepwise self-assembly in which spherical nanoparticles mature into an entangled fibrillary network.
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Affiliation(s)
- Ruben Van Lommel
- Molecular Design and Synthesis, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Box 2404, 3001 Leuven, Belgium
- Eenheid Algemene Chemie (ALGC), Department of Chemistry, Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium
| | - Julie Van Hooste
- Molecular Design and Synthesis, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Box 2404, 3001 Leuven, Belgium
| | - Johannes Vandaele
- Molecular Imaging and Photonics, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Box 2404, 3001 Leuven, Belgium
| | - Gert Steurs
- Molecular Design and Synthesis, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Box 2404, 3001 Leuven, Belgium
| | - Tom Van der Donck
- Department of Materials Engineering, KU Leuven, Kasteelpark Arenberg 44, 3001 Leuven, Belgium
| | - Frank De Proft
- Eenheid Algemene Chemie (ALGC), Department of Chemistry, Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium
| | - Susana Rocha
- Molecular Imaging and Photonics, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Box 2404, 3001 Leuven, Belgium
| | - Dimitrios Sakellariou
- Center for Membrane Separations, Adsorption, Catalysis and Spectroscopy for Sustainable Solutions (cMACS), Department of Microbial and Molecular Systems (M2S), KU Leuven, Celestijnenlaan 200F, Box 2454, 3001 Leuven, Belgium
| | - Mercedes Alonso
- Eenheid Algemene Chemie (ALGC), Department of Chemistry, Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussels, Belgium
- Correspondence: (M.A.); (W.M.D.B.)
| | - Wim M. De Borggraeve
- Molecular Design and Synthesis, Department of Chemistry, KU Leuven, Celestijnenlaan 200F, Box 2404, 3001 Leuven, Belgium
- Correspondence: (M.A.); (W.M.D.B.)
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7
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The primeval optical evolving matter by optical binding inside and outside the photon beam. Nat Commun 2022; 13:5325. [PMID: 36088393 PMCID: PMC9464242 DOI: 10.1038/s41467-022-33070-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2021] [Accepted: 08/25/2022] [Indexed: 11/08/2022] Open
Abstract
AbstractOptical binding has recently gained considerable attention because it enables the light-induced assembly of many-body systems; however, this phenomenon has only been described between directly irradiated particles. Here, we demonstrate that optical binding can occur outside the focal spot of a single tightly focused laser beam. By trapping at an interface, we assemble up to three gold nanoparticles with a linear arrangement which fully-occupies the laser focus. The trapping laser is efficiently scattered by this linear alignment and interacts with particles outside the focus area, generating several discrete arc-shape potential wells with a half-wavelength periodicity. Those external nanoparticles inside the arcs show a correlated motion not only with the linear aligned particles, but also between themselves even both are not directly illuminated. We propose that the particles are optically bound outside the focal spot by the back-scattered light and multi-channel light scattering, forming a dynamic optical binding network.
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8
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Kozawa Y, Nakamura T, Uesugi Y, Sato S. Wavefront engineered light needle microscopy for axially resolved rapid volumetric imaging. BIOMEDICAL OPTICS EXPRESS 2022; 13:1702-1717. [PMID: 35415006 PMCID: PMC8973193 DOI: 10.1364/boe.449329] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/22/2021] [Revised: 02/09/2022] [Accepted: 02/15/2022] [Indexed: 06/14/2023]
Abstract
Increasing the acquisition speed of three-dimensional volumetric images is important-particularly in biological imaging-to unveil the structural dynamics and functionalities of specimens in detail. In conventional laser scanning fluorescence microscopy, volumetric images are constructed from optical sectioning images sequentially acquired by changing the observation plane, limiting the acquisition speed. Here, we present a novel method to realize volumetric imaging from two-dimensional raster scanning of a light needle spot without sectioning, even in the traditional framework of laser scanning microscopy. Information from multiple axial planes is simultaneously captured using wavefront engineering for fluorescence signals, allowing us to readily survey the entire depth range while maintaining spatial resolution. This technique is applied to real-time and video-rate three-dimensional tracking of micrometer-sized particles, as well as the prompt visualization of thick fixed biological specimens, offering substantially faster volumetric imaging.
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Affiliation(s)
- Yuichi Kozawa
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai 980-8577, Japan
| | - Tomoya Nakamura
- SANKEN, Osaka University, 8-1 Mihogaoka, Ibaraki, Osaka 567-0047, Japan
| | - Yuuki Uesugi
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai 980-8577, Japan
| | - Shunichi Sato
- Institute of Multidisciplinary Research for Advanced Materials, Tohoku University, 2-1-1 Katahira, Aoba-ku, Sendai 980-8577, Japan
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9
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Filbrun SL, Zhao F, Chen K, Huang TX, Yang M, Cheng X, Dong B, Fang N. Imaging Dynamic Processes in Multiple Dimensions and Length Scales. Annu Rev Phys Chem 2022; 73:377-402. [PMID: 35119943 DOI: 10.1146/annurev-physchem-090519-034100] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Optical microscopy has become an invaluable tool for investigating complex samples. Over the years, many advances to optical microscopes have been made that have allowed us to uncover new insights into the samples studied. Dynamic changes in biological and chemical systems are of utmost importance to study. To probe these samples, multidimensional approaches have been developed to acquire a fuller understanding of the system of interest. These dimensions include the spatial information, such as the three-dimensional coordinates and orientation of the optical probes, and additional chemical and physical properties through combining microscopy with various spectroscopic techniques. In this review, we survey the field of multidimensional microscopy and provide an outlook on the field and challenges that may arise. Expected final online publication date for the Annual Review of Physical Chemistry, Volume 73 is April 2022. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
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Affiliation(s)
- Seth L Filbrun
- Department of Chemistry, Georgia State University, Atlanta, Georgia, USA
| | - Fei Zhao
- Department of Chemistry, Georgia State University, Atlanta, Georgia, USA
| | - Kuangcai Chen
- Department of Chemistry, Georgia State University, Atlanta, Georgia, USA.,Imaging Core Facility, Georgia State University, Atlanta, Georgia, USA
| | - Teng-Xiang Huang
- Department of Chemistry, Georgia State University, Atlanta, Georgia, USA
| | - Meek Yang
- Department of Chemistry and Biochemistry, University of Arkansas, Fayetteville, Arkansas, USA;
| | - Xiaodong Cheng
- The MOE Key Laboratory of Spectrochemical Analysis and Instrumentation, State Key Laboratory of Physical Chemistry of Solid Surfaces, Innovation Laboratory for Sciences and Technologies of Energy Materials of Fujian Province (IKKEM), Xiamen Key Laboratory of Analytical Molecular Nanotechnology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, Fujian, China; ,
| | - Bin Dong
- Department of Chemistry and Biochemistry, University of Arkansas, Fayetteville, Arkansas, USA;
| | - Ning Fang
- The MOE Key Laboratory of Spectrochemical Analysis and Instrumentation, State Key Laboratory of Physical Chemistry of Solid Surfaces, Innovation Laboratory for Sciences and Technologies of Energy Materials of Fujian Province (IKKEM), Xiamen Key Laboratory of Analytical Molecular Nanotechnology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, Fujian, China; ,
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10
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Martens KJA, Turkowyd B, Endesfelder U. Raw Data to Results: A Hands-On Introduction and Overview of Computational Analysis for Single-Molecule Localization Microscopy. FRONTIERS IN BIOINFORMATICS 2022; 1:817254. [PMID: 36303761 PMCID: PMC9580916 DOI: 10.3389/fbinf.2021.817254] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2021] [Accepted: 12/28/2021] [Indexed: 09/28/2023] Open
Abstract
Single-molecule localization microscopy (SMLM) is an advanced microscopy method that uses the blinking of fluorescent molecules to determine the position of these molecules with a resolution below the diffraction limit (∼5-40 nm). While SMLM imaging itself is becoming more popular, the computational analysis surrounding the technique is still a specialized area and often remains a "black box" for experimental researchers. Here, we provide an introduction to the required computational analysis of SMLM imaging, post-processing and typical data analysis. Importantly, user-friendly, ready-to-use and well-documented code in Python and MATLAB with exemplary data is provided as an interactive experience for the reader, as well as a starting point for further analysis. Our code is supplemented by descriptions of the computational problems and their implementation. We discuss the state of the art in computational methods and software suites used in SMLM imaging and data analysis. Finally, we give an outlook into further computational challenges in the field.
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Affiliation(s)
- Koen J. A. Martens
- Department of Physics, Carnegie Mellon University, Pittsburgh, PA, United States
- Institute for Microbiology and Biotechnology, Rheinische-Friedrich-Wilhelms-Universität Bonn, Bonn, Germany
| | - Bartosz Turkowyd
- Department of Physics, Carnegie Mellon University, Pittsburgh, PA, United States
- Institute for Microbiology and Biotechnology, Rheinische-Friedrich-Wilhelms-Universität Bonn, Bonn, Germany
- Department of Systems and Synthetic Microbiology, Max Planck Institute for Terrestrial Microbiology, LOEWE Center for Synthetic Microbiology (SYNMIKRO), Marburg, Germany
| | - Ulrike Endesfelder
- Department of Physics, Carnegie Mellon University, Pittsburgh, PA, United States
- Institute for Microbiology and Biotechnology, Rheinische-Friedrich-Wilhelms-Universität Bonn, Bonn, Germany
- Department of Systems and Synthetic Microbiology, Max Planck Institute for Terrestrial Microbiology, LOEWE Center for Synthetic Microbiology (SYNMIKRO), Marburg, Germany
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11
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Gregor I, Butkevich E, Enderlein J, Mojiri S. Instant three-color multiplane fluorescence microscopy. BIOPHYSICAL REPORTS 2021; 1:100001. [PMID: 36425311 PMCID: PMC9680778 DOI: 10.1016/j.bpr.2021.100001] [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: 04/04/2021] [Accepted: 06/22/2021] [Indexed: 06/16/2023]
Abstract
One of the most widely used microscopy techniques in biology and medicine is fluorescence microscopy, offering high specificity in labeling as well as maximal sensitivity. For live-cell imaging, the ideal fluorescence microscope should offer high spatial resolution, fast image acquisition, three-dimensional sectioning, and multicolor detection. However, most existing fluorescence microscopes have to compromise between these different requirements. Here, we present a multiplane, multicolor wide-field microscope that uses a dedicated beam splitter for recording volumetric data in eight focal planes and for three emission colors with frame rates of hundreds of volumes per second. We demonstrate the efficiency and performance of our system by three-dimensional imaging of multiply labeled fixed and living cells. The use of commercially available components makes our proposed microscope straightforward for implementation, thus promising for widely used applications.
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Affiliation(s)
| | | | - Jörg Enderlein
- III. Institute of Physics – Biophysics
- Cluster of Excellence “Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells,” Georg-August-University, Göttingen, Germany
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12
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Kamit A, Tseng C, Kudo T, Sugiyama T, Hofkens J, Bresolí‐Obach R, Masuhara H. Unraveling the three‐dimensional morphology and dynamics of the optically evolving polystyrene nanoparticle assembly using dual‐objective lens microscopy. J CHIN CHEM SOC-TAIP 2021. [DOI: 10.1002/jccs.202100275] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Abdullah Kamit
- Department of Applied Chemistry and Center for Emergent Functional Matter Science National Yang Ming Chao Tung University Hsinchu Taiwan
| | - Ching‐Shiang Tseng
- Department of Applied Chemistry and Center for Emergent Functional Matter Science National Yang Ming Chao Tung University Hsinchu Taiwan
| | - Tetsuhiro Kudo
- Department of Applied Chemistry and Center for Emergent Functional Matter Science National Yang Ming Chao Tung University Hsinchu Taiwan
- Laser Science Laboratory Toyota Technological University Nagoya Japan
| | - Teruki Sugiyama
- Department of Applied Chemistry and Center for Emergent Functional Matter Science National Yang Ming Chao Tung University Hsinchu Taiwan
- Division of Materials Science, Graduate School of Science and Technology Nara Institute of Science and Technology Ikoma Nara Japan
| | - Johan Hofkens
- Department of Chemistry Katholieke Universiteit Leuven Leuven Belgium
- Max‐Planck‐Institute for Polymer Research Mainz Germany
| | - Roger Bresolí‐Obach
- Department of Applied Chemistry and Center for Emergent Functional Matter Science National Yang Ming Chao Tung University Hsinchu Taiwan
- Department of Chemistry Katholieke Universiteit Leuven Leuven Belgium
| | - Hiroshi Masuhara
- Department of Applied Chemistry and Center for Emergent Functional Matter Science National Yang Ming Chao Tung University Hsinchu Taiwan
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13
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Nehme E, Ferdman B, Weiss LE, Naor T, Freedman D, Michaeli T, Shechtman Y. Learning Optimal Wavefront Shaping for Multi-Channel Imaging. IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE 2021; 43:2179-2192. [PMID: 34029185 DOI: 10.1109/tpami.2021.3076873] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Fast acquisition of depth information is crucial for accurate 3D tracking of moving objects. Snapshot depth sensing can be achieved by wavefront coding, in which the point-spread function (PSF) is engineered to vary distinctively with scene depth by altering the detection optics. In low-light applications, such as 3D localization microscopy, the prevailing approach is to condense signal photons into a single imaging channel with phase-only wavefront modulation to achieve a high pixel-wise signal to noise ratio. Here we show that this paradigm is generally suboptimal and can be significantly improved upon by employing multi-channel wavefront coding, even in low-light applications. We demonstrate our multi-channel optimization scheme on 3D localization microscopy in densely labelled live cells where detectability is limited by overlap of modulated PSFs. At extreme densities, we show that a split-signal system, with end-to-end learned phase masks, doubles the detection rate and reaches improved precision compared to the current state-of-the-art, single-channel design. We implement our method using a bifurcated optical system, experimentally validating our approach by snapshot volumetric imaging and 3D tracking of fluorescently labelled subcellular elements in dense environments.
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14
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Mojiri S, Isbaner S, Mühle S, Jang H, Bae AJ, Gregor I, Gholami A, Enderlein J. Rapid multi-plane phase-contrast microscopy reveals torsional dynamics in flagellar motion. BIOMEDICAL OPTICS EXPRESS 2021; 12:3169-3180. [PMID: 34221652 PMCID: PMC8221972 DOI: 10.1364/boe.419099] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/07/2021] [Revised: 04/12/2021] [Accepted: 04/13/2021] [Indexed: 05/23/2023]
Abstract
High speed volumetric optical microscopy is an important tool for observing rapid processes in living cells or for real-time tracking of sub-cellular components. However, the 3D imaging capability often comes at the price of a high technical complexity of the imaging system and/or the requirement of demanding image analysis. Here, we propose a combination of conventional phase-contrast imaging with a customized multi-plane beam-splitter for enabling simultaneous acquisition of images in eight different focal planes. Our method is technically straightforward and does not require complex post-processing image analysis. We apply our multi-plane phase-contrast microscope to the real-time observation of the fast motion of reactivated Chlamydomonas axonemes with sub-µm spatial and 4 ms temporal resolution. Our system allows us to observe not only bending but also the three-dimensional torsional dynamics of these micro-swimmers.
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Affiliation(s)
- Soheil Mojiri
- III. Institute of Physics –
Biophysics, Georg-August-University, 37077
Göttingen, Germany
| | - Sebastian Isbaner
- III. Institute of Physics –
Biophysics, Georg-August-University, 37077
Göttingen, Germany
| | - Steffen Mühle
- III. Institute of Physics –
Biophysics, Georg-August-University, 37077
Göttingen, Germany
| | - Hongje Jang
- III. Institute of Physics –
Biophysics, Georg-August-University, 37077
Göttingen, Germany
| | - Albert Johann Bae
- Max-Planck-Institute for
Dynamics and Self-Organization, 37077 Göttingen,
Germany
| | - Ingo Gregor
- III. Institute of Physics –
Biophysics, Georg-August-University, 37077
Göttingen, Germany
| | - Azam Gholami
- Max-Planck-Institute for
Dynamics and Self-Organization, 37077 Göttingen,
Germany
- Cluster of Excellence “Multiscale
Bioimaging: from Molecular Machines to Networks of Excitable
Cells” (MBExC),
Georg-August-University, 37077
Göttingen, Germany
| | - Jörg Enderlein
- III. Institute of Physics –
Biophysics, Georg-August-University, 37077
Göttingen, Germany
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15
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Abstract
When an intense 1,064-nm continuous-wave laser is tightly focused at solution surfaces, it exerts an optical force on molecules, polymers, and nanoparticles (NPs). Initially, molecules and NPs are gathered into a single assembly inside the focus, and the laser is scattered and propagated through the assembly. The expanded laser further traps them at the edge of the assembly, producing a single assembly much larger than the focus along the surface. Amino acids and inorganic ionic compounds undergo crystallization and crystal growth, polystyrene NPs form periodic arrays and disklike structures with concentric circles or hexagonal packing, and Au NPs demonstrate assembling and swarming, in which the NPs fluctuate like a group of bees. These phenomena that depend on laser polarization are called optically evolved assembling at solution surfaces, and their dynamics and mechanisms are elucidated in this review. As a promising application in materials science, the optical trapping assembly of lead halide perovskites, supramolecules, and aggregation-induced emission enhancement-active molecules is demonstrated and future directions for fundamental study are discussed.
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Affiliation(s)
- Hiroshi Masuhara
- Department of Applied Chemistry and Center for Emergent Functional Matter Science, National Chiao Tung University, Hsinchu 30010, Taiwan;
| | - Ken-Ichi Yuyama
- Department of Chemistry, Osaka City University, Osaka 558-8585, Japan;
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16
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Jui-Kai Chen J, Chiang WY, Kudo T, Usman A, Masuhara H. Nanoparticle Assembling Dynamics Induced by Pulsed Optical Force. CHEM REC 2021; 21:1473-1488. [PMID: 33661570 DOI: 10.1002/tcr.202100005] [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: 01/07/2021] [Revised: 02/23/2021] [Accepted: 02/24/2021] [Indexed: 11/06/2022]
Abstract
Femtosecond (fs) laser trapping dynamics is summarized for silica, hydrophobically modified silica, and polystyrene nanoparticles (NPs) in aqueous solution, highlighting their distinct optical trapping dynamics under CW laser. Mutually repulsive silica nanoparticles are tightly confined under fs laser compared to CW laser trapping and, upon increasing laser power, they are ejected from the focus as an assembly. Hydrophobically modified silica and polystyrene (PS) NPs are sequentially ejected just like a stream or ablated, giving bubbles. The ejection and bubbling take place with the direction perpendicular to laser polarization and its direction is randomly switched from one to the other. These characteristic features are interpreted from the viewpoint of single assembly formation of NPs at an asymmetric position in the optical potential. Temporal change in optical forces map is prepared for a single PS NP by calculating scattering, gradient, and temporal forces. The relative contribution of the forces changes with the volume increase of the assembly and, when the pushing force along the trapping pulse propagation overcome the gradient in the focal plane, the assembly undergoes the ejection. Further fs multiphoton absorption is induced for the larger assembly leading to bubble generation. The assembling, ejection, and bubbling dynamics of NPs are characteristic features of pulsed optical force and are considered as a new platform for developing new material fabrication method.
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Affiliation(s)
- Jim Jui-Kai Chen
- Department of Applied Chemistry, National Chiao Tung University, 1001, Ta Hsueh Rd., Hsinchu, 30010, Taiwan
| | - Wei-Yi Chiang
- Department of Applied Chemistry, National Chiao Tung University, 1001, Ta Hsueh Rd., Hsinchu, 30010, Taiwan.,Department of Chemistry, Rice University, 6100 Main St., Space Science and Technology Building, Houston, TX 77005, USA
| | - Tetsuhiro Kudo
- Department of Applied Chemistry, National Chiao Tung University, 1001, Ta Hsueh Rd., Hsinchu, 30010, Taiwan
| | - Anwar Usman
- Department of Chemistry, Faculty of Science, Universiti Brunei Darussalam, Jalan Tungku Link, Gadong, BE1410, Negara Brunei Darussalam
| | - Hiroshi Masuhara
- Department of Applied Chemistry, National Chiao Tung University, 1001, Ta Hsueh Rd., Hsinchu, 30010, Taiwan.,Center for Emergent Functional Matter Science, National Chiao Tung University, 1001 Ta Hsueh Rd., Hsinchu, 30010, Taiwan
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