1
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Xu J, Brown NJS, Seol Y, Neuman KC. Heterogeneous distribution of kinesin-streptavidin complexes revealed by mass photometry. SOFT MATTER 2024; 20:5509-5515. [PMID: 38832814 PMCID: PMC11254546 DOI: 10.1039/d3sm01702h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2024]
Abstract
Kinesin-streptavidin complexes are widely used in microtubule-based active-matter studies. The stoichiometry of the complexes is empirically tuned but experimentally challenging to determine. Here, mass photometry measurements reveal heterogenous distributions of kinesin-streptavidin complexes. Our binding model indicates that heterogeneity arises from both the kinesin-streptavidin mixing ratio and the kinesin-biotinylation efficiency.
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Affiliation(s)
- Jing Xu
- Department of Physics, University of California, Merced, CA 95343, USA.
| | - Nathaniel J S Brown
- Department of Quantitative and Systems Biology, University of California, Merced, CA 95343, USA
| | - Yeonee Seol
- Laboratory of Single Molecule Biophysics, National Heart, Lung and Blood Institute, NIH, Bethesda, MD 20892, USA
| | - Keir C Neuman
- Laboratory of Single Molecule Biophysics, National Heart, Lung and Blood Institute, NIH, Bethesda, MD 20892, USA
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2
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Park JS, Lee IB, Hong SC, Cho M. Label-Free Interference Imaging of Intracellular Trafficking. Acc Chem Res 2024; 57:1565-1576. [PMID: 38781567 DOI: 10.1021/acs.accounts.4c00001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/25/2024]
Abstract
Intracellular cargo trafficking is a highly regulated process responsible for transporting vital cellular components to their designated destinations. This intricate journey has been a central focus of cellular biology for many years. Early investigations leaned heavily on biochemical and genetic approaches, offering valuable insight into molecular mechanisms of cellular trafficking. However, while informative, these methods lack the capacity to capture the dynamic nature of intracellular trafficking. The advent of fluorescent protein tagging techniques transformed our ability to monitor the complete lifecycle of intracellular cargos, advancing our understanding. Yet, a central question remains: How do these cargos manage to navigate through traffic challenges, such as congestion, within the crowded cellular environment? Fluorescence-based imaging, though valuable, has inherent limitations when it comes to addressing the aforementioned question. It is prone to photobleaching, making long-term live-cell imaging challenging. Furthermore, they render unlabeled cellular constituents invisible, thereby missing critical environmental information. Notably, the unlabeled majority likely exerts a significant influence on the observed behavior of labeled molecules. These considerations underscore the necessity of developing complementary label-free imaging methods to overcome the limitations of fluorescence imaging or to integrate them synergistically.In this Account, we outline how label-free interference-based imaging has the potential to revolutionize the study of intracellular traffic by offering unprecedented levels of detail. We begin with a brief introduction to our previous findings in live-cell research enabled by interferometric scattering (iSCAT) microscopy, showcasing its aptitude and adeptness in elucidating intricate nanoscale intracellular structures. As we delved deeper into our exploration, we succeeded in the label-free visualization of the entire lifespan of nanoscale protein complexes known as nascent adhesions (NAs) and the dynamic events associated with adhesions within living cells. Our continuous efforts have led to the development of Dynamic Scattering-particle Localization Interference Microscopy (DySLIM), a generalized concept of cargo-localization iSCAT (CL-iSCAT). This label-free, high-speed imaging method, armed with iSCAT detection sensitivity, empowers us to capture quantitative and biophysical insights into cargo transport, providing a realistic view of the intricate nanoscale logistics occurring within living cells. Our in vivo studies demonstrate that intracellular cargos regularly contend with substantial traffic within the crowded cellular environment. Simultaneously, they employ inherent strategies for efficient cargo transport, such as collective migration and hitchhiking, to enhance overall transport rates─intriguingly paralleling the principle and practice of urban traffic management. We also highlight the synergistic benefits of combining DySLIM with chemical-selective fluorescent methods. This Account concludes with a "Conclusions and Outlook" section, outlining promising directions for future research and developments, with a particular emphasis on the functional application of iSCAT live-cell imaging. We aim to inspire further investigation into the efficient transport strategies employed by cells to surmount transportation challenges, shedding light on their significance in cellular phenomena.
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Affiliation(s)
- Jin-Sung Park
- Center for Molecular Spectroscopy and Dynamics, Institute for Basic Science, Seoul 02841, Korea
| | - Il-Buem Lee
- Center for Molecular Spectroscopy and Dynamics, Institute for Basic Science, Seoul 02841, Korea
| | - Seok-Cheol Hong
- Center for Molecular Spectroscopy and Dynamics, Institute for Basic Science, Seoul 02841, Korea
- Department of Physics, Korea University, Seoul 02841, Korea
| | - Minhaeng Cho
- Center for Molecular Spectroscopy and Dynamics, Institute for Basic Science, Seoul 02841, Korea
- Department of Chemistry, Korea University, Seoul 02841, Korea
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3
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Gruber CG, Frey L, Guntermann R, Medina DD, Cortés E. Early stages of covalent organic framework formation imaged in operando. Nature 2024; 630:872-877. [PMID: 38839960 PMCID: PMC11208157 DOI: 10.1038/s41586-024-07483-0] [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: 08/25/2023] [Accepted: 04/29/2024] [Indexed: 06/07/2024]
Abstract
Covalent organic frameworks (COFs) are a functional material class able to harness, convert and store energy. However, after almost 20 years of research, there are no coherent prediction rules for their synthesis conditions. This is partly because of an incomplete picture of nucleation and growth at the early stages of formation. Here we use the optical technique interferometric scattering microscopy (iSCAT)1-3 for in operando studies of COF polymerization and framework formation. We observe liquid-liquid phase separation, pointing to the existence of structured solvents in the form of surfactant-free (micro)emulsions in conventional COF synthesis. Our findings show that the role of solvents extends beyond solubility to being kinetic modulators by compartmentation of reactants and catalyst. Taking advantage of these observations, we develop a synthesis protocol for COFs using room temperature instead of elevated temperatures. This work connects framework synthesis with liquid phase diagrams and thereby enables an active design of the reaction environment, emphasizing that visualization of chemical reactions by means of light-scattering-based techniques can be a powerful approach for advancing rational materials synthesis.
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Affiliation(s)
- Christoph G Gruber
- Nanoinstitute Munich and Center for NanoScience (CeNS), Faculty of Physics, Ludwig-Maximilians-Universität München, Munich, Germany
| | - Laura Frey
- Department of Chemistry and Center for NanoScience (CeNS), Ludwig-Maximilians-Universität München, Munich, Germany
| | - Roman Guntermann
- Department of Chemistry and Center for NanoScience (CeNS), Ludwig-Maximilians-Universität München, Munich, Germany
| | - Dana D Medina
- Department of Chemistry and Center for NanoScience (CeNS), Ludwig-Maximilians-Universität München, Munich, Germany.
| | - Emiliano Cortés
- Nanoinstitute Munich and Center for NanoScience (CeNS), Faculty of Physics, Ludwig-Maximilians-Universität München, Munich, Germany.
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4
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Martens KJA, Turkowyd B, Hohlbein J, Endesfelder U. Temporal analysis of relative distances (TARDIS) is a robust, parameter-free alternative to single-particle tracking. Nat Methods 2024; 21:1074-1081. [PMID: 38225387 DOI: 10.1038/s41592-023-02149-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2023] [Accepted: 12/08/2023] [Indexed: 01/17/2024]
Abstract
In single-particle tracking, individual particles are localized and tracked over time to probe their diffusion and molecular interactions. Temporal crossing of trajectories, blinking particles, and false-positive localizations present computational challenges that have remained difficult to overcome. Here we introduce a robust, parameter-free alternative to single-particle tracking: temporal analysis of relative distances (TARDIS). In TARDIS, an all-to-all distance analysis between localizations is performed with increasing temporal shifts. These pairwise distances represent either intraparticle distances originating from the same particle, or interparticle distances originating from unrelated particles, and are fitted analytically to obtain quantitative measures on particle dynamics. We showcase that TARDIS outperforms tracking algorithms, benchmarked on simulated and experimental data of varying complexity. We further show that TARDIS performs accurately in complex conditions characterized by high particle density, strong emitter blinking or false-positive localizations, and is in fact limited by the capabilities of localization algorithms. TARDIS' robustness enables fivefold shorter measurements without loss of information.
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Affiliation(s)
- Koen J A Martens
- Institute for Microbiology and Biotechnology, Rheinische Friedrich-Wilhelms-Universität Bonn, Bonn, Germany.
- Department of Physics, Carnegie Mellon University, Pittsburgh, PA, USA.
- Laboratory of Biophysics, Wageningen University and Research, Wageningen, the Netherlands.
| | - Bartosz Turkowyd
- Institute for Microbiology and Biotechnology, Rheinische Friedrich-Wilhelms-Universität Bonn, Bonn, Germany
- Department of Physics, Carnegie Mellon University, Pittsburgh, PA, USA
| | - Johannes Hohlbein
- Laboratory of Biophysics, Wageningen University and Research, Wageningen, the Netherlands
- Microspectroscopy Research Facility, Wageningen University and Research, Wageningen, the Netherlands
| | - Ulrike Endesfelder
- Institute for Microbiology and Biotechnology, Rheinische Friedrich-Wilhelms-Universität Bonn, Bonn, Germany
- Department of Physics, Carnegie Mellon University, Pittsburgh, PA, USA
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5
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Xu J, Brown NJS, Seol Y, Neuman KC. Heterogeneous distribution of kinesin-streptavidin complexes revealed by Mass Photometry. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2023.12.21.572878. [PMID: 38187562 PMCID: PMC10769409 DOI: 10.1101/2023.12.21.572878] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/09/2024]
Abstract
Kinesin-streptavidin complexes are widely used in microtubule-based active-matter studies. The stoichiometry of the complexes is empirically tuned but experimentally challenging to determine. Here, mass photometry measurements reveal heterogenous distributions of kinesin-streptavidin complexes. Our binding model indicates that heterogeneity arises from both the kinesin-streptavidin mixing ratio and the kinesin-biotinylation efficiency.
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Affiliation(s)
- Jing Xu
- Department of Physics, University of California, Merced, CA 95343, USA
| | - Nathaniel J. S. Brown
- Department of Quantitative and Systems Biology, University of California, Merced, CA 95343, USA
| | - Yeonee Seol
- Laboratory of Single Molecule Biophysics, National Heart, Lung and Blood Institute, NIH, Bethesda, MD 20892, USA
| | - Keir C. Neuman
- Laboratory of Single Molecule Biophysics, National Heart, Lung and Blood Institute, NIH, Bethesda, MD 20892, USA
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6
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Kowal MD, Seifried TM, Brouwer CC, Tavakolizadeh H, Olsén E, Grant E. Electrophoretic Deposition Interferometric Scattering Mass Photometry. ACS NANO 2024; 18:10388-10396. [PMID: 38567867 DOI: 10.1021/acsnano.3c09221] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/17/2024]
Abstract
Interferometric scattering microscopy (iSCAT) has rapidly developed as a quantitative tool for the label-free detection of single macromolecules and nanoparticles. In practice, this measurement records the interferometric scattering signal of individual nanoparticles in solution as they land and stick on a coverslip, exhibiting an intensity that varies linearly with particle volume and an adsorption rate that reflects the solution-phase transport kinetics of the system. Together, such measurements provide a multidimensional gauge of the particle size and concentration in solution over time. However, the landing kinetics of particles in solution also manifest a measurement frequency limitation imposed by the slow long-range mobility of particle diffusion to the measurement interface. Here we introduce an effective means to overcome the inherent diffusion-controlled sampling limitation of spontaneous mass photometry. We term this methodology electrophoretic deposition interferometric scattering microscopy (EPD-iSCAT). This approach uses a coverslip supporting a conductive thin film of indium tin oxide (ITO). Charging this ITO film to a potential of around +1 V electrophoretically draws charged nanoparticles from solution and binds them in the focal plane of the microscope. Regulating this potential offers a direct means of controlling particle deposition. Thus, we find for a 0.1 nM solution of 50 nm polystyrene nanoparticles that the application of +1 V to an EPD-iSCAT coverslip assembly drives an electrophoretic deposition rate constant of 1.7 s-1 μm-2 nM-1. Removal of the potential causes deposition to cease. This user control of EPD-iSCAT affords a means to apply single-molecule mass photometry to monitor long-term changes in solution, owing to slow kinetic processes. In contrast with conventional coverslips chemically derivatized with charged thin films, EPD-iSCAT maintains a deposition rate that varies linearly with the bulk concentration.
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Affiliation(s)
- Matthew D Kowal
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Teresa M Seifried
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Carraugh C Brouwer
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Hooman Tavakolizadeh
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Erik Olsén
- Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, V6T 1Z4, Canada
| | - Edward Grant
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
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7
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Fineberg A, Takagi Y, Thirumurugan K, Andrecka J, Billington N, Young G, Cole D, Burgess SA, Curd AP, Hammer JA, Sellers JR, Kukura P, Knight PJ. Myosin-5 varies its step length to carry cargo straight along the irregular F-actin track. Proc Natl Acad Sci U S A 2024; 121:e2401625121. [PMID: 38507449 PMCID: PMC10990141 DOI: 10.1073/pnas.2401625121] [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: 02/15/2024] [Indexed: 03/22/2024] Open
Abstract
Molecular motors employ chemical energy to generate unidirectional mechanical output against a track while navigating a chaotic cellular environment, potential disorder on the track, and against Brownian motion. Nevertheless, decades of nanometer-precise optical studies suggest that myosin-5a, one of the prototypical molecular motors, takes uniform steps spanning 13 subunits (36 nm) along its F-actin track. Here, we use high-resolution interferometric scattering microscopy to reveal that myosin takes strides spanning 22 to 34 actin subunits, despite walking straight along the helical actin filament. We show that cumulative angular disorder in F-actin accounts for the observed proportion of each stride length, akin to crossing a river on variably spaced stepping stones. Electron microscopy revealed the structure of the stepping molecule. Our results indicate that both motor and track are soft materials that can adapt to function in complex cellular conditions.
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Affiliation(s)
- Adam Fineberg
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, OxfordOX1 3QZ, United Kingdom
- Laboratory of Single Molecule Biophysics, Biochemistry and Biophysics Center, National Heart, Lung, and Blood Institute, NIH, Bethesda, MD20892
| | - Yasuharu Takagi
- Laboratory of Molecular Physiology, Cell and Developmental Biology Center, National Heart, Lung, and Blood Institute, NIH, Bethesda, MD20892
| | - Kavitha Thirumurugan
- Astbury Centre for Structural Molecular Biology, and School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, LeedsLS2 9JT, United Kingdom
| | - Joanna Andrecka
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, OxfordOX1 3QZ, United Kingdom
| | - Neil Billington
- Laboratory of Molecular Physiology, Cell and Developmental Biology Center, National Heart, Lung, and Blood Institute, NIH, Bethesda, MD20892
| | - Gavin Young
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, OxfordOX1 3QZ, United Kingdom
| | - Daniel Cole
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, OxfordOX1 3QZ, United Kingdom
| | - Stan A. Burgess
- Astbury Centre for Structural Molecular Biology, and School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, LeedsLS2 9JT, United Kingdom
| | - Alistair P. Curd
- Astbury Centre for Structural Molecular Biology, and School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, LeedsLS2 9JT, United Kingdom
| | - John A. Hammer
- Cell and Developmental Biology Center, National Heart, Lung, and Blood Institute, NIH, Bethesda, MD20892
| | - James R. Sellers
- Laboratory of Molecular Physiology, Cell and Developmental Biology Center, National Heart, Lung, and Blood Institute, NIH, Bethesda, MD20892
| | - Philipp Kukura
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, OxfordOX1 3QZ, United Kingdom
- The Kavli Institute for Nanoscience Discovery, Dorothy Crowfoot Hodgkin Building, University of Oxford, OxfordOX1 3QU, United Kingdom
| | - Peter J. Knight
- Astbury Centre for Structural Molecular Biology, and School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, LeedsLS2 9JT, United Kingdom
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8
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Liu Y, Chen Q, Zhang H, Feng Z, Zou G, Zhang D. Cascaded momentum-space polarization filters enabled label-free black-field microscopy for single nanoparticles analysis. Proc Natl Acad Sci U S A 2024; 121:e2321825121. [PMID: 38498716 PMCID: PMC10990084 DOI: 10.1073/pnas.2321825121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2023] [Accepted: 02/25/2024] [Indexed: 03/20/2024] Open
Abstract
Label-free optical imaging of single-nanometer-scale matter is extremely important for a variety of biomedical, physical, and chemical investigations. One central challenge is that the background intensity is much stronger than the intensity of the scattering light from single nano-objects. Here, we propose an optical module comprising cascaded momentum-space polarization filters that can perform vector field modulation to block most of the background field and result in an almost black background; in contrast, only a small proportion of the scattering field is blocked, leading to obvious imaging contrast enhancement. This module can be installed in various optical microscopies to realize a black-field microscopy. Various single nano-objects with dimensions smaller than 20 nm appear distinctly in the black-field images. The chemical reactions occurring on single nanocrystals with edge lengths of approximately 10 nm are in situ real-time monitored by using the black-field microscopy. This label-free black-field microscopy is highly promising for a wide range of future multidisciplinary science applications.
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Affiliation(s)
- Yang Liu
- Advanced Laser Technology Laboratory of Anhui Province, Department of Optics and Optical Engineering, University of Science and Technology of China, Hefei, Anhui230026, China
| | - Qiankun Chen
- Advanced Laser Technology Laboratory of Anhui Province, Department of Optics and Optical Engineering, University of Science and Technology of China, Hefei, Anhui230026, China
| | - Hongli Zhang
- Chinese Academy of Sciences Key Laboratory of Soft Matter Chemistry, Department of Polymer Science and Engineering, University of Science and Technology of China, Hefei, Anhui230026, China
| | - Zeyu Feng
- Chinese Academy of Sciences Key Laboratory of Soft Matter Chemistry, Department of Polymer Science and Engineering, University of Science and Technology of China, Hefei, Anhui230026, China
| | - Gang Zou
- Chinese Academy of Sciences Key Laboratory of Soft Matter Chemistry, Department of Polymer Science and Engineering, University of Science and Technology of China, Hefei, Anhui230026, China
| | - Douguo Zhang
- Advanced Laser Technology Laboratory of Anhui Province, Department of Optics and Optical Engineering, University of Science and Technology of China, Hefei, Anhui230026, China
- Hefei National Research Center for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui230026, China
- Hefei National Laboratory, University of Science and Technology of China, Hefei230088, China
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9
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Peters M, McIntosh D, Branzan Albu A, Ying C, Gordon R. Label-Free Tracking of Proteins through Plasmon-Enhanced Interference. ACS NANOSCIENCE AU 2024; 4:69-75. [PMID: 38406310 PMCID: PMC10885339 DOI: 10.1021/acsnanoscienceau.3c00045] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Revised: 10/25/2023] [Accepted: 10/26/2023] [Indexed: 02/27/2024]
Abstract
Single unmodified biomolecules in solution can be observed and characterized by interferometric imaging approaches; however, Rayleigh scattering limits this to larger proteins (typically >30 kDa). We observe real-time image tracking of unmodified proteins down to 14 kDa using interference imaging enhanced by surface plasmons launched at an aperture in a metal film. The larger proteins show slower diffusion, quantified by tracking. When the diffusing protein is finally trapped by the nanoaperture, we perform complementary power spectral density and noise amplitude analysis, which gives information about the protein. This approach allows for rapid protein characterization with minimal sample preparation and opens the door to characterizing protein interactions in real time.
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Affiliation(s)
- Matthew Peters
- Department
of Electrical Engineering, University of
Victoria, Victoria, British Columbia V8W 2Y2, Canada
- Centre
for Advanced Materials & Related Technologies (CAMTEC), University of Victoria, Victoria, British Columbia V8W 2Y2, Canada
| | - Declan McIntosh
- Department
of Electrical Engineering, University of
Victoria, Victoria, British Columbia V8W 2Y2, Canada
| | - Alexandra Branzan Albu
- Department
of Electrical Engineering, University of
Victoria, Victoria, British Columbia V8W 2Y2, Canada
| | - Cuifeng Ying
- Advanced
Optics and Photonics Laboratory, Department of Engineering, School
of Science & Technology, Nottingham
Trent University, Nottingham NG11 8NS, U.K.
| | - Reuven Gordon
- Department
of Electrical Engineering, University of
Victoria, Victoria, British Columbia V8W 2Y2, Canada
- Centre
for Advanced Materials & Related Technologies (CAMTEC), University of Victoria, Victoria, British Columbia V8W 2Y2, Canada
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10
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Cheng SW, Xu D, Su H, Baxter JM, Holtzman LN, Watanabe K, Taniguchi T, Hone JC, Barmak K, Delor M. Optical Imaging of Ultrafast Phonon-Polariton Propagation through an Excitonic Sensor. NANO LETTERS 2023; 23:9936-9942. [PMID: 37852205 DOI: 10.1021/acs.nanolett.3c02897] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/20/2023]
Abstract
Hexagonal boron nitride (hBN) hosts phonon polaritons (PhP), hybrid light-matter states that facilitate electromagnetic field confinement and exhibit long-range ballistic transport. Extracting the spatiotemporal dynamics of PhPs usually requires "tour de force" experimental methods such as ultrafast near-field infrared microscopy. Here, we leverage the remarkable environmental sensitivity of excitons in two-dimensional transition metal dichalcogenides to image PhP propagation in adjacent hBN slabs. Using ultrafast optical microscopy on monolayer WSe2/hBN heterostructures, we image propagating PhPs from 3.5 K to room temperature with subpicosecond and few-nanometer precision. Excitons in WSe2 act as transducers between visible light pulses and infrared PhPs, enabling visible-light imaging of PhP transport with far-field microscopy. We also report evidence of excitons in WSe2 copropagating with hBN PhPs over several micrometers. Our results provide new avenues for imaging polar excitations over a large frequency range with extreme spatiotemporal precision and new mechanisms to realize ballistic exciton transport at room temperature.
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Affiliation(s)
- Shan-Wen Cheng
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Ding Xu
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Haowen Su
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - James M Baxter
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Luke N Holtzman
- Department of Applied Physics and Applied Mathematics, Columbia University, New York, New York 10027, United States
| | - Kenji Watanabe
- Research Center for Electronic and Optical Materials, National Institute for Materials Science, 1-1 Namiki, Tsukuba 305-0044, Japan
| | - Takashi Taniguchi
- Research Center for Materials Nanoarchitectonics, National Institute for Materials Science, 1-1 Namiki, Tsukuba 305-0044, Japan
| | - James C Hone
- Department of Mechanical Engineering, Columbia University, New York, New York 10027, United States
| | - Katayun Barmak
- Department of Applied Physics and Applied Mathematics, Columbia University, New York, New York 10027, United States
| | - Milan Delor
- Department of Chemistry, Columbia University, New York, New York 10027, United States
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11
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Xia Q, Guo Z, Zong H, Seitz S, Yurdakul C, Ünlü MS, Wang L, Connor JH, Cheng JX. Single virus fingerprinting by widefield interferometric defocus-enhanced mid-infrared photothermal microscopy. Nat Commun 2023; 14:6655. [PMID: 37863905 PMCID: PMC10589364 DOI: 10.1038/s41467-023-42439-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Accepted: 10/11/2023] [Indexed: 10/22/2023] Open
Abstract
Clinical identification and fundamental study of viruses rely on the detection of viral proteins or viral nucleic acids. Yet, amplification-based and antigen-based methods are not able to provide precise compositional information of individual virions due to small particle size and low-abundance chemical contents (e.g., ~ 5000 proteins in a vesicular stomatitis virus). Here, we report a widefield interferometric defocus-enhanced mid-infrared photothermal (WIDE-MIP) microscope for high-throughput fingerprinting of single viruses. With the identification of feature absorption peaks, WIDE-MIP reveals the contents of viral proteins and nucleic acids in single DNA vaccinia viruses and RNA vesicular stomatitis viruses. Different nucleic acid signatures of thymine and uracil residue vibrations are obtained to differentiate DNA and RNA viruses. WIDE-MIP imaging further reveals an enriched β sheet components in DNA varicella-zoster virus proteins. Together, these advances open a new avenue for compositional analysis of viral vectors and elucidating protein function in an assembled virion.
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Affiliation(s)
- Qing Xia
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - Zhongyue Guo
- Department of Biomedical Engineering, Boston University, Boston, MA, 02215, USA
| | - Haonan Zong
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - Scott Seitz
- Department of Microbiology and National Infectious Diseases Laboratories, Boston University School of Medicine, Boston, MA, 02118, USA
| | - Celalettin Yurdakul
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - M Selim Ünlü
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - Le Wang
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA
| | - John H Connor
- Department of Microbiology and National Infectious Diseases Laboratories, Boston University School of Medicine, Boston, MA, 02118, USA.
| | - Ji-Xin Cheng
- Department of Electrical and Computer Engineering, Boston University, Boston, MA, 02215, USA.
- Department of Biomedical Engineering, Boston University, Boston, MA, 02215, USA.
- Photonics Center, Boston University, Boston, MA, 02215, USA.
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12
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Paul A, Kolenov D, Scholte T, Pereira SF. Coherent Fourier scatterometry: a holistic tool for inspection of isolated particles or defects on gratings. APPLIED OPTICS 2023; 62:7589-7595. [PMID: 37855466 DOI: 10.1364/ao.503350] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/14/2023] [Accepted: 09/14/2023] [Indexed: 10/20/2023]
Abstract
Detecting defects on diffraction gratings is crucial for ensuring their performance and reliability. Practical detection of these defects poses challenges due to their subtle nature. We perform numerical investigations and demonstrate experimentally the capability of coherent Fourier scatterometry (CFS) to detect particles as small as 100 nm and also other irregularities that are encountered usually on diffraction gratings. Our findings indicate that CFS is a viable tool for inspection of diffraction gratings.
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13
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Fineberg A, Takagi Y, Thirumurugan K, Andrecka J, Billington N, Young G, Cole D, Burgess SA, Curd AP, Hammer JA, Sellers JR, Kukura P, Knight PJ. Myosin-5 varies its steps along the irregular F-actin track. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.07.16.549178. [PMID: 37503193 PMCID: PMC10370000 DOI: 10.1101/2023.07.16.549178] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/29/2023]
Abstract
Molecular motors employ chemical energy to generate unidirectional mechanical output against a track. By contrast to the majority of macroscopic machines, they need to navigate a chaotic cellular environment, potential disorder in the track and Brownian motion. Nevertheless, decades of nanometer-precise optical studies suggest that myosin-5a, one of the prototypical molecular motors, takes uniform steps spanning 13 subunits (36 nm) along its F-actin track. Here, we use high-resolution interferometric scattering (iSCAT) microscopy to reveal that myosin takes strides spanning 22 to 34 actin subunits, despite walking straight along the helical actin filament. We show that cumulative angular disorder in F-actin accounts for the observed proportion of each stride length, akin to crossing a river on variably-spaced stepping stones. Electron microscopy revealed the structure of the stepping molecule. Our results indicate that both motor and track are soft materials that can adapt to function in complex cellular conditions.
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Affiliation(s)
- Adam Fineberg
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford OX1 3QZ, U.K
- Laboratory of Single Molecule Biophysics, NHLBI, National Institutes of Health, Bethesda, Maryland 20892, U.S.A
| | - Yasuharu Takagi
- Laboratory of Molecular Physiology, NHLBI, National Institutes of Health, Bethesda, Maryland 20892, U.S.A
| | - Kavitha Thirumurugan
- Astbury Centre for Structural Molecular Biology, and Institute of Molecular and Cellular Biology, University of Leeds, Leeds, LS2 9JT, U.K
- Present address: Structural Biology Lab, Pearl Research Park, SBST, Vellore Institute of Technology, Vellore-632 014, India
| | - Joanna Andrecka
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford OX1 3QZ, U.K
- Present address: Human Technopole, Viale Rita Levi-Montalcini 1, 20157, Milan, Italy
| | - Neil Billington
- Laboratory of Molecular Physiology, NHLBI, National Institutes of Health, Bethesda, Maryland 20892, U.S.A
- Present address: Department of Biochemistry and Molecular Medicine, West Virginia University, Morgantown, WV, U.S.A
| | - Gavin Young
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford OX1 3QZ, U.K
- Present address: Refeyn Ltd., Unit 9, Trade City, Sandy Ln W, Littlemore, Oxford OX4 6FF, U.K
| | - Daniel Cole
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford OX1 3QZ, U.K
- Present address: Refeyn Ltd., Unit 9, Trade City, Sandy Ln W, Littlemore, Oxford OX4 6FF, U.K
| | - Stan A. Burgess
- Astbury Centre for Structural Molecular Biology, and Institute of Molecular and Cellular Biology, University of Leeds, Leeds, LS2 9JT, U.K
| | - Alistair P. Curd
- Astbury Centre for Structural Molecular Biology, and Institute of Molecular and Cellular Biology, University of Leeds, Leeds, LS2 9JT, U.K
| | - John A. Hammer
- Cell and Developmental Biology Center, NHLBI, National Institutes of Health, Bethesda, MD 20892, U.S.A
| | - James R. Sellers
- Laboratory of Molecular Physiology, NHLBI, National Institutes of Health, Bethesda, Maryland 20892, U.S.A
| | - Philipp Kukura
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford OX1 3QZ, U.K
- The Kavli Institute for Nanoscience Discovery, Dorothy Crowfoot Hodgkin Building, University of Oxford, South Parks Rd, Oxford OX1 3QU, U.K
| | - Peter J. Knight
- Astbury Centre for Structural Molecular Biology, and Institute of Molecular and Cellular Biology, University of Leeds, Leeds, LS2 9JT, U.K
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14
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Heidt A. Powerful microscope captures motor proteins in unprecedented detail. Nature 2023:10.1038/d41586-023-01906-0. [PMID: 37291475 DOI: 10.1038/d41586-023-01906-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
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15
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Ghosh B, Agarwal K. Viewing life without labels under optical microscopes. Commun Biol 2023; 6:559. [PMID: 37231084 PMCID: PMC10212946 DOI: 10.1038/s42003-023-04934-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2023] [Accepted: 05/12/2023] [Indexed: 05/27/2023] Open
Abstract
Optical microscopes today have pushed the limits of speed, quality, and observable space in biological specimens revolutionizing how we view life today. Further, specific labeling of samples for imaging has provided insight into how life functions. This enabled label-based microscopy to percolate and integrate into mainstream life science research. However, the use of labelfree microscopy has been mostly limited, resulting in testing for bio-application but not bio-integration. To enable bio-integration, such microscopes need to be evaluated for their timeliness to answer biological questions uniquely and establish a long-term growth prospect. The article presents key label-free optical microscopes and discusses their integrative potential in life science research for the unperturbed analysis of biological samples.
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16
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Feng G, Shi Y, Jia H, Risal S, Yang X, Ruchhoeft P, Shih WC, Fan Z, Xu W, Shan X. Progressive and instantaneous nature of lithium nucleation discovered by dynamic and operando imaging. SCIENCE ADVANCES 2023; 9:eadg6813. [PMID: 37224260 PMCID: PMC10208563 DOI: 10.1126/sciadv.adg6813] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2023] [Accepted: 04/17/2023] [Indexed: 05/26/2023]
Abstract
The understanding of lithium (Li) nucleation and growth is important to design better electrodes for high-performance batteries. However, the study of Li nucleation process is still limited because of the lack of imaging tools that can provide information of the entire dynamic process. We developed and used an operando reflection interference microscope (RIM) that enables real-time imaging and tracking the Li nucleation dynamics at a single nanoparticle level. This dynamic and operando imaging platform provides us with critical capabilities to continuously monitor and study the Li nucleation process. We find that the formation of initial Li nuclei is not at the exact same time point, and Li nucleation process shows the properties of both progressive and instantaneous nucleation. In addition, the RIM allows us to track the individual Li nucleus's growth and extract spatially resolved overpotential map. The nonuniform overpotential map indicates that the localized electrochemical environments substantially influence the Li nucleation.
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Affiliation(s)
- Guangxia Feng
- Department of Electrical and Computer Engineering, University of Houston, Houston, TX 77204, USA
| | - Yaping Shi
- Department of Electrical and Computer Engineering, University of Houston, Houston, TX 77204, USA
| | - Hao Jia
- Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA 99354, USA
| | - Samprash Risal
- Department of Engineering Technology, University of Houston, Houston, TX 77204, USA
| | - Xu Yang
- Department of Electrical and Computer Engineering, University of Houston, Houston, TX 77204, USA
| | - Paul Ruchhoeft
- Department of Electrical and Computer Engineering, University of Houston, Houston, TX 77204, USA
| | - Wei-Chuan Shih
- Department of Electrical and Computer Engineering, University of Houston, Houston, TX 77204, USA
| | - Zheng Fan
- Department of Engineering Technology, University of Houston, Houston, TX 77204, USA
| | - Wu Xu
- Energy and Environment Directorate, Pacific Northwest National Laboratory, Richland, WA 99354, USA
| | - Xiaonan Shan
- Department of Electrical and Computer Engineering, University of Houston, Houston, TX 77204, USA
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17
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Zhang L, Fan H, Dang Y, Zhuang Q, Arandiyan H, Wang Y, Cheng N, Sun H, Pérez Garza HH, Zheng R, Wang Z, S Mofarah S, Koshy P, Bhargava SK, Cui Y, Shao Z, Liu Y. Recent advances in in situ and operando characterization techniques for Li 7La 3Zr 2O 12-based solid-state lithium batteries. MATERIALS HORIZONS 2023; 10:1479-1538. [PMID: 37040188 DOI: 10.1039/d3mh00135k] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Li7La3Zr2O12 (LLZO)-based solid-state Li batteries (SSLBs) have emerged as one of the most promising energy storage systems due to the potential advantages of solid-state electrolytes (SSEs), such as ionic conductivity, mechanical strength, chemical stability and electrochemical stability. However, there remain several scientific and technical obstacles that need to be tackled before they can be commercialised. The main issues include the degradation and deterioration of SSEs and electrode materials, ambiguity in the Li+ migration routes in SSEs, and interface compatibility between SSEs and electrodes during the charging and discharging processes. Using conventional ex situ characterization techniques to unravel the reasons that lead to these adverse results often requires disassembly of the battery after operation. The sample may be contaminated during the disassembly process, resulting in changes in the material properties within the battery. In contrast, in situ/operando characterization techniques can capture dynamic information during cycling, enabling real-time monitoring of batteries. Therefore, in this review, we briefly illustrate the key challenges currently faced by LLZO-based SSLBs, review recent efforts to study LLZO-based SSLBs using various in situ/operando microscopy and spectroscopy techniques, and elaborate on the capabilities and limitations of these in situ/operando techniques. This review paper not only presents the current challenges but also outlines future developmental prospects for the practical implementation of LLZO-based SSLBs. By identifying and addressing the remaining challenges, this review aims to enhance the comprehensive understanding of LLZO-based SSLBs. Additionally, in situ/operando characterization techniques are highlighted as a promising avenue for future research. The findings presented here can serve as a reference for battery research and provide valuable insights for the development of different types of solid-state batteries.
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Affiliation(s)
- Lei Zhang
- School of Materials Science and Engineering, Northeastern University, Shenyang 110819, China.
- School of Resources and Materials, Northeastern University at Qinhuangdao, Qinhuangdao 066004, China
| | - Huilin Fan
- School of Materials Science and Engineering, Northeastern University, Shenyang 110819, China.
- School of Resources and Materials, Northeastern University at Qinhuangdao, Qinhuangdao 066004, China
| | - Yuzhen Dang
- School of Materials Science and Engineering, Northeastern University, Shenyang 110819, China.
- School of Resources and Materials, Northeastern University at Qinhuangdao, Qinhuangdao 066004, China
| | - Quanchao Zhuang
- School of Materials and Physics, China University of Mining & Technology, Xuzhou 221116, China.
| | - Hamidreza Arandiyan
- Laboratory of Advanced Catalysis for Sustainability, School of Chemistry, University of Sydney, Sydney, NSW 2006, Australia.
- Centre for Advanced Materials and Industrial Chemistry (CAMIC), School of Science, RMIT University, Melbourne, VIC 3000, Australia
| | - Yuan Wang
- Institute for Frontier Materials, Deakin University, Melbourne, Vic 3125, Australia
| | - Ningyan Cheng
- Information Materials and Intelligent Sensing Laboratory of Anhui Province, Key Laboratory of Structure and Functional Regulation of Hybrid Materials of Ministry of Education, Institutes of Physical Science and Information Technology, Anhui University, Hefei 230601, China
| | - Hongyu Sun
- DENSsolutions B.V., Informaticalaan 12, 2628 ZD Delft, The Netherlands
| | | | - Runguo Zheng
- School of Materials Science and Engineering, Northeastern University, Shenyang 110819, China.
- School of Resources and Materials, Northeastern University at Qinhuangdao, Qinhuangdao 066004, China
| | - Zhiyuan Wang
- School of Materials Science and Engineering, Northeastern University, Shenyang 110819, China.
- School of Resources and Materials, Northeastern University at Qinhuangdao, Qinhuangdao 066004, China
| | - Sajjad S Mofarah
- School of Materials Science and Engineering, UNSW Sydney, Sydney, NSW 2052, Australia
| | - Pramod Koshy
- School of Materials Science and Engineering, UNSW Sydney, Sydney, NSW 2052, Australia
| | - Suresh K Bhargava
- Centre for Advanced Materials and Industrial Chemistry (CAMIC), School of Science, RMIT University, Melbourne, VIC 3000, Australia
| | - Yanhua Cui
- Institute of Electronic Engineering, China Academy of Engineering Physics, Mianyang 621900, China
| | - Zongping Shao
- WA School of Mines: Minerals, Energy and Chemical Engineering, Curtin University, Perth, WA, 6845, Australia
| | - Yanguo Liu
- School of Materials Science and Engineering, Northeastern University, Shenyang 110819, China.
- School of Resources and Materials, Northeastern University at Qinhuangdao, Qinhuangdao 066004, China
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18
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Boyle MJ, Goldman YE, Composto RJ. Enhancing Nanoparticle Detection in Interferometric Scattering (iSCAT) Microscopy Using a Mask R-CNN. J Phys Chem B 2023; 127:3737-3745. [PMID: 37074024 DOI: 10.1021/acs.jpcb.3c00097] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/20/2023]
Abstract
Interferometric scattering microscopy (iSCAT) is a label-free optical microscopy technique that enables imaging of individual nano-objects such as nanoparticles, viruses, and proteins. Essential to this technique is the suppression of background scattering and identification of signals from nano-objects. In the presence of substrates with high roughness, scattering heterogeneities in the background, when coupled with tiny stage movements, cause features in the background to be manifested in background-suppressed iSCAT images. Traditional computer vision algorithms detect these background features as particles, limiting the accuracy of object detection in iSCAT experiments. Here, we present a pathway to improve particle detection in such situations using supervised machine learning via a mask region-based convolutional neural network (mask R-CNN). Using a model iSCAT experiment of 19.2 nm gold nanoparticles adsorbing to a rough layer-by-layer polyelectrolyte film, we develop a method to generate labeled datasets using experimental background images and simulated particle signals and train the mask R-CNN using limited computational resources via transfer learning. We then compare the performance of the mask R-CNN trained with and without inclusion of experimental backgrounds in the dataset against that of a traditional computer vision object detection algorithm, Haar-like feature detection, by analyzing data from the model experiment. Results demonstrate that including representative backgrounds in training datasets improved the mask R-CNN in differentiating between background and particle signals and elevated performance by markedly reducing false positives. The methodology for creating a labeled dataset with representative experimental backgrounds and simulated signals facilitates the application of machine learning in iSCAT experiments with strong background scattering and thus provides a useful workflow for future researchers to improve their image processing capabilities.
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Affiliation(s)
- Michael J Boyle
- Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
- Center for Engineered Materials and Manufacturing, Lawrence Livermore National Laboratory, Livermore, California 94550, United States
| | - Yale E Goldman
- Department of Physiology and Pennsylvania Muscle Institute, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
| | - Russell J Composto
- Department of Materials Science and Engineering, University of Pennsylvania, Philadelphia, Pennsylvania 19104, United States
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19
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Graciani G, Yoon TY. The New Kid on the Block: Mass Photometry. Mol Cells 2023; 46:187-189. [PMID: 36994477 PMCID: PMC10070162 DOI: 10.14348/molcells.2023.0017] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2023] [Accepted: 01/25/2023] [Indexed: 03/31/2023] Open
Affiliation(s)
- Guillaume Graciani
- Institute for Molecular Biology and Genetics, Seoul National University, Seoul 08826, Korea
| | - Tae-Young Yoon
- Institute for Molecular Biology and Genetics, Seoul National University, Seoul 08826, Korea
- School of Biological Sciences, Seoul National University, Seoul 08826, Korea
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20
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Žambochová K, Lee IB, Park JS, Hong SC, Cho M. Axial profiling of interferometric scattering enables an accurate determination of nanoparticle size. OPTICS EXPRESS 2023; 31:10101-10113. [PMID: 37157566 DOI: 10.1364/oe.480337] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Interferometric scattering (iSCAT) microscopy has undergone significant development in recent years. It is a promising technique for imaging and tracking nanoscopic label-free objects with nanometer localization precision. The current iSCAT-based photometry technique allows quantitative estimation for the size of a nanoparticle by measuring iSCAT contrast and has been successfully applied to nano-objects smaller than the Rayleigh scattering limit. Here we provide an alternative method that overcomes such size limitations. We take into account the axial variation of iSCAT contrast and utilize a vectorial point spread function model to uncover the position of a scattering dipole and, consequently, the size of the scatterer, which is not limited to the Rayleigh limit. We found that our technique accurately measures the size of spherical dielectric nanoparticles in a purely optical and non-contact way. We also tested fluorescent nanodiamonds (fND) and obtained a reasonable estimate for the size of fND particles. Together with fluorescence measurement from fND, we observed a correlation between the fluorescent signal and the size of fND. Our results showed that the axial pattern of iSCAT contrast provides sufficient information for the size of spherical particles. Our method enables us to measure the size of nanoparticles from tens of nanometers and beyond the Rayleigh limit with nanometer precision, making a versatile all-optical nanometric technique.
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21
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Wirth JO, Scheiderer L, Engelhardt T, Engelhardt J, Matthias J, Hell SW. MINFLUX dissects the unimpeded walking of kinesin-1. Science 2023; 379:1004-1010. [PMID: 36893244 DOI: 10.1126/science.ade2650] [Citation(s) in RCA: 33] [Impact Index Per Article: 33.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2022] [Accepted: 01/23/2023] [Indexed: 03/11/2023]
Abstract
We introduce an interferometric MINFLUX microscope that records protein movements with up to 1.7 nanometer per millisecond spatiotemporal precision. Such precision has previously required attaching disproportionately large beads to the protein, but MINFLUX requires the detection of only about 20 photons from an approximately 1-nanometer-sized fluorophore. Therefore, we were able to study the stepping of the motor protein kinesin-1 on microtubules at up to physiological adenosine-5'-triphosphate (ATP) concentrations. We uncovered rotations of the stalk and the heads of load-free kinesin during stepping and showed that ATP is taken up with a single head bound to the microtubule and that ATP hydrolysis occurs when both heads are bound. Our results show that MINFLUX quantifies (sub)millisecond conformational changes of proteins with minimal disturbance.
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Affiliation(s)
- Jan O Wirth
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Lukas Scheiderer
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Tobias Engelhardt
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Johann Engelhardt
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Jessica Matthias
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
| | - Stefan W Hell
- Department of Optical Nanoscopy, Max Planck Institute for Medical Research, Heidelberg, Germany
- Department of NanoBiophotonics, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany
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22
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Ströhl F, Wolfson DL, Opstad IS, Hansen DH, Mao H, Ahluwalia BS. Label-free superior contrast with c-band ultra-violet extinction microscopy. LIGHT, SCIENCE & APPLICATIONS 2023; 12:56. [PMID: 36864022 PMCID: PMC9981877 DOI: 10.1038/s41377-023-01105-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/27/2022] [Revised: 02/14/2023] [Accepted: 02/14/2023] [Indexed: 06/18/2023]
Abstract
In 1934, Frits Zernike demonstrated that it is possible to exploit the sample's refractive index to obtain superior contrast images of biological cells. The refractive index contrast of a cell surrounded by media yields a change in the phase and intensity of the transmitted light wave. This change can be due to either scattering or absorption caused by the sample. Most cells are transparent at visible wavelengths, which means the imaginary component of their complex refractive index, also known as extinction coefficient k, is close to zero. Here, we explore the use of c-band ultra-violet (UVC) light for high-contrast high-resolution label-free microscopy, as k is naturally substantially higher in the UVC than at visible wavelengths. Using differential phase contrast illumination and associated processing, we achieve a 7- to 300-fold improvement in contrast compared to visible-wavelength and UVA differential interference contrast microscopy or holotomography, and quantify the extinction coefficient distribution within liver sinusoidal endothelial cells. With a resolution down to 215 nm, we are, for the first time in a far-field label-free method, able to image individual fenestrations within their sieve plates which normally requires electron or fluorescence superresolution microscopy. UVC illumination also matches the excitation peak of intrinsically fluorescent proteins and amino acids and thus allows us to utilize autofluorescence as an independent imaging modality on the same setup.
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Affiliation(s)
- Florian Ströhl
- Department of Physics and Technology, UiT The Arctic University of Norway, Tromsø, Norway.
| | - Deanna L Wolfson
- Department of Physics and Technology, UiT The Arctic University of Norway, Tromsø, Norway
| | - Ida S Opstad
- Department of Physics and Technology, UiT The Arctic University of Norway, Tromsø, Norway
| | - Daniel H Hansen
- Department of Physics and Technology, UiT The Arctic University of Norway, Tromsø, Norway
| | - Hong Mao
- Department of Physics and Technology, UiT The Arctic University of Norway, Tromsø, Norway
| | - Balpreet S Ahluwalia
- Department of Physics and Technology, UiT The Arctic University of Norway, Tromsø, Norway
- Department of Clinical Science, Intervention and Technology, Karolinska Institute, Stockholm, Sweden
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23
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Dey S, Dolci M, Zijlstra P. Single-Molecule Optical Biosensing: Recent Advances and Future Challenges. ACS PHYSICAL CHEMISTRY AU 2023; 3:143-156. [PMID: 36968450 PMCID: PMC10037498 DOI: 10.1021/acsphyschemau.2c00061] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/01/2022] [Revised: 12/22/2022] [Accepted: 12/22/2022] [Indexed: 01/13/2023]
Abstract
In recent years, the sensitivity and specificity of optical sensors has improved tremendously due to improvements in biochemical functionalization protocols and optical detection systems. As a result, single-molecule sensitivity has been reported in a range of biosensing assay formats. In this Perspective, we summarize optical sensors that achieve single-molecule sensitivity in direct label-free assays, sandwich assays, and competitive assays. We describe the advantages and disadvantages of single-molecule assays and summarize future challenges in the field including their optical miniaturization and integration, multimodal sensing capabilities, accessible time scales, and compatibility with real-life matrices such as biological fluids. We conclude by highlighting the possible application areas of optical single-molecule sensors that include not only healthcare but also the monitoring of the environment and industrial processes.
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Affiliation(s)
- Swayandipta Dey
- Eindhoven University of Technology, Department of Applied Physics, Eindhoven 5600 MB, The Netherlands
- Institute for Complex Molecular Systems, Eindhoven, 5600 MB, The Netherlands
- Eindhoven Hendrik Casimir Institute, Eindhoven, 5600 MB, The Netherlands
| | - Mathias Dolci
- Eindhoven University of Technology, Department of Applied Physics, Eindhoven 5600 MB, The Netherlands
- Institute for Complex Molecular Systems, Eindhoven, 5600 MB, The Netherlands
- Eindhoven Hendrik Casimir Institute, Eindhoven, 5600 MB, The Netherlands
| | - Peter Zijlstra
- Eindhoven University of Technology, Department of Applied Physics, Eindhoven 5600 MB, The Netherlands
- Institute for Complex Molecular Systems, Eindhoven, 5600 MB, The Netherlands
- Eindhoven Hendrik Casimir Institute, Eindhoven, 5600 MB, The Netherlands
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24
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Zhang W, Taheri-Ledari R, Ganjali F, Mirmohammadi SS, Qazi FS, Saeidirad M, KashtiAray A, Zarei-Shokat S, Tian Y, Maleki A. Effects of morphology and size of nanoscale drug carriers on cellular uptake and internalization process: a review. RSC Adv 2022; 13:80-114. [PMID: 36605676 PMCID: PMC9764328 DOI: 10.1039/d2ra06888e] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Accepted: 11/25/2022] [Indexed: 12/24/2022] Open
Abstract
In the field of targeted drug delivery, the effects of size and morphology of drug nanocarriers are of great importance and need to be discussed in depth. To be concise, among all the various shapes of nanocarriers, rods and tubes with a narrow cross-section are the most preferred shapes for the penetration of a cell membrane. In this regard, several studies have focused on methods to produce nanorods and nanotubes with controlled optimized size and aspect ratio (AR). Additionally, a non-spherical orientation could affect the cellular uptake process while a tangent angle of less than 45° is better at penetrating the membrane, and Ω = 90° is beneficial. Moreover, these nanocarriers show different behaviors when confronting diverse cells whose fields should be investigated in future studies. In this survey, a comprehensive classification based on carrier shape is first submitted. Then, the most commonly used methods for control over the size and shape of the carriers are reviewed. Finally, influential factors on the cellular uptake and internalization processes and related analytical methods for evaluating this process are discussed.
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Affiliation(s)
- Wenjie Zhang
- Department of Nuclear Medicine, West China Hospital, Sichuan University No. 37, Guoxue Alley Chengdu 610041 Sichuan Province P. R. China
| | - Reza Taheri-Ledari
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology Tehran 16846-13114 Iran +98 21 73021584 +98 21 77240640-50
| | - Fatemeh Ganjali
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology Tehran 16846-13114 Iran +98 21 73021584 +98 21 77240640-50
| | - Seyedeh Shadi Mirmohammadi
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology Tehran 16846-13114 Iran +98 21 73021584 +98 21 77240640-50
| | - Fateme Sadat Qazi
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology Tehran 16846-13114 Iran +98 21 73021584 +98 21 77240640-50
| | - Mahdi Saeidirad
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology Tehran 16846-13114 Iran +98 21 73021584 +98 21 77240640-50
| | - Amir KashtiAray
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology Tehran 16846-13114 Iran +98 21 73021584 +98 21 77240640-50
| | - Simindokht Zarei-Shokat
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology Tehran 16846-13114 Iran +98 21 73021584 +98 21 77240640-50
| | - Ye Tian
- Department of Orthodontics, West China Hospital of Stomatology, Sichuan University No. 14, 3rd Section of South Renmin Road Chengdu 610041 P. R. China
| | - Ali Maleki
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology Tehran 16846-13114 Iran +98 21 73021584 +98 21 77240640-50
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25
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Østerlund I, Persson S, Nikoloski Z. Tracing and tracking filamentous structures across scales: A systematic review. Comput Struct Biotechnol J 2022; 21:452-462. [PMID: 36618983 PMCID: PMC9804014 DOI: 10.1016/j.csbj.2022.12.023] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Revised: 12/14/2022] [Accepted: 12/14/2022] [Indexed: 12/23/2022] Open
Abstract
Filamentous structures are ubiquitous in nature, are studied in diverse scientific fields, and span vastly different spatial scales. Filamentous structures in biological systems fulfill different functions and often form dynamic networks that respond to perturbations. Therefore, characterizing the properties of filamentous structures and the networks they form is important to gain better understanding of systems level functions and dynamics. Filamentous structures are captured by various imaging technologies, and analysis of the resulting imaging data addresses two problems: (i) identification (tracing) of filamentous structures in a single snapshot and (ii) characterizing the dynamics (i.e., tracking) of filamentous structures over time. Therefore, considerable research efforts have been made in developing automated methods for tracing and tracking of filamentous structures. Here, we provide a systematic review in which we present, categorize, and discuss the state-of-the-art methods for tracing and tracking of filamentous structures in sparse and dense networks. We highlight the mathematical approaches, assumptions, and constraints particular for each method, allowing us to pinpoint outstanding challenges and offer perspectives for future research aimed at gaining better understanding of filamentous structures in biological systems.
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Affiliation(s)
- Isabella Østerlund
- Department of Plant and Environmental Sciences, University of Copenhagen, 1871 Frederiksberg, Denmark,,Bioinformatics, Institute of Biochemistry and Biology, University of Potsdam, 14476 Potsdam, Germany
| | - Staffan Persson
- Department of Plant and Environmental Sciences, University of Copenhagen, 1871 Frederiksberg, Denmark
| | - Zoran Nikoloski
- Bioinformatics, Institute of Biochemistry and Biology, University of Potsdam, 14476 Potsdam, Germany,Systems Biology and Mathematical Modeling, Max Planck Institute of Molecular Plant Physiology, 14476 Potsdam, Germany,Corresponding author at: Bioinformatics, Institute of Biochemistry and Biology, University of Potsdam, 14476 Potsdam, Germany.
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26
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Hsiao YT, Wu TY, Wu BK, Chu SW, Hsieh CL. Spinning disk interferometric scattering confocal microscopy captures millisecond timescale dynamics of living cells. OPTICS EXPRESS 2022; 30:45233-45245. [PMID: 36522930 DOI: 10.1364/oe.471935] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/11/2022] [Accepted: 10/27/2022] [Indexed: 06/17/2023]
Abstract
Interferometric scattering (iSCAT) microscopy is a highly sensitive imaging technique that uses common-path interferometry to detect the linear scattering fields associated with samples. However, when measuring a complex sample, such as a biological cell, the superposition of the scattering signals from various sources, particularly those along the optical axis of the microscope objective, considerably complicates the data interpretation. Herein, we demonstrate high-speed, wide-field iSCAT microscopy in conjunction with confocal optical sectioning. Utilizing the multibeam scanning strategy of spinning disk confocal microscopy, our iSCAT confocal microscope acquires images at a rate of 1,000 frames per second (fps). The configurations of the spinning disk and the background correction procedures are described. The iSCAT confocal microscope is highly sensitive-individual 10 nm gold nanoparticles are successfully detected. Using high-speed iSCAT confocal imaging, we captured the rapid movements of single nanoparticles on the model membrane and single native vesicles in the living cells. Label-free iSCAT confocal imaging enables the detailed visualization of nanoscopic cell dynamics in their most native forms. This holds promise to unveil cell activities that are previously undescribed by fluorescence-based microscopy.
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27
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Xia Q, Yin J, Guo Z, Cheng JX. Mid-Infrared Photothermal Microscopy: Principle, Instrumentation, and Applications. J Phys Chem B 2022; 126:8597-8613. [PMID: 36285985 DOI: 10.1021/acs.jpcb.2c05827] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
Midinfrared photothermal (MIP) microscopy, also called optical photothermal infrared (O-PTIR) microscopy, is an emerging tool for bond-selective chemical imaging of living biological and material samples. In MIP microscopy, a visible probe beam detects the photothermal-based contrast induced by a vibrational absorption. With submicron spatial resolution, high spectral fidelity, and reduced water absorption background, MIP microscopy has overcome the limitations in infrared chemical imaging methods. In this review, we summarize the basic principle of MIP microscopy, the different origins of MIP contrasts, and recent technology development that pushed the resolution, speed, and sensitivity of MIP imaging to a new stage. We further emphasize its broad applications in life science and material characterization, and provide a perspective of future technical advances.
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Affiliation(s)
- Qing Xia
- Department of Electrical and Computer Engineering, Boston University, Boston, Massachusetts 02215, United States.,Photonics Center, Boston University, Boston, Massachusetts 02215, United States
| | - Jiaze Yin
- Department of Electrical and Computer Engineering, Boston University, Boston, Massachusetts 02215, United States.,Photonics Center, Boston University, Boston, Massachusetts 02215, United States
| | - Zhongyue Guo
- Photonics Center, Boston University, Boston, Massachusetts 02215, United States.,Department of Biomedical Engineering, Boston University, Boston, Massachusetts 02215, United States
| | - Ji-Xin Cheng
- Department of Electrical and Computer Engineering, Boston University, Boston, Massachusetts 02215, United States.,Photonics Center, Boston University, Boston, Massachusetts 02215, United States.,Department of Biomedical Engineering, Boston University, Boston, Massachusetts 02215, United States
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28
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Yang W, Wei Z, Nie Y, Tian Y. Optical Detection and Imaging of Nonfluorescent Matter at the Single-Molecule/Particle Level. J Phys Chem Lett 2022; 13:9618-9631. [PMID: 36214484 DOI: 10.1021/acs.jpclett.2c02228] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Since the first optical detection of single molecules in 1989, single-molecule spectroscopy has developed rapidly and been widely applied in many areas. However, the vast majority of matter is extremely inefficient at emitting photons in our physical world, which seriously limits the applications of optical methods based on photoluminescence. In addition to indirect detection by fluorescence labeling, many efforts have been made to directly image nonfluorescent matter at the single-particle or single-molecule level in different ways based on the absorption or scattering interaction between light and matter. Herein, we review five popular methods for imaging nonfluorescent particles/molecules, including dark-field microscopy (DFM), surface plasmon resonance microscopy (SPRM), surface enhanced Raman microscopy (SERM), interferometric scattering microscopy (iSCAT), and photothermal microscopy (PTM). After summarizing the principles and applications of these methods, we compare the advantages and disadvantages of each method and describe further potential development and applications.
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Affiliation(s)
- Weiqing Yang
- Key Laboratory of Mesoscopic Chemistry of MOE, School of Chemistry and Chemical Engineering, Jiangsu Key Laboratory of Vehicle Emissions Control, Nanjing University, Nanjing210023, China
| | - Zhihong Wei
- Key Laboratory of Mesoscopic Chemistry of MOE, School of Chemistry and Chemical Engineering, Jiangsu Key Laboratory of Vehicle Emissions Control, Nanjing University, Nanjing210023, China
| | - Yan Nie
- Key Laboratory of Mesoscopic Chemistry of MOE, School of Chemistry and Chemical Engineering, Jiangsu Key Laboratory of Vehicle Emissions Control, Nanjing University, Nanjing210023, China
| | - Yuxi Tian
- Key Laboratory of Mesoscopic Chemistry of MOE, School of Chemistry and Chemical Engineering, Jiangsu Key Laboratory of Vehicle Emissions Control, Nanjing University, Nanjing210023, China
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29
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Fan X, Batchelor-McAuley C, Yang M, Compton RG. Single Calcite Particle Dissolution Kinetics: Revealing the Influence of Mass Transport. ACS MEASUREMENT SCIENCE AU 2022; 2:422-429. [PMID: 36785660 PMCID: PMC9885995 DOI: 10.1021/acsmeasuresciau.2c00025] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Calcite dissolution kinetics at the single particle scale are determined. It is demonstrated that at high undersaturation and in the absence of inhibitors the particulate mineral dissolution rate is controlled by a saturated calcite surface in local equilibrium with dissolved Ca2+ and CO3 2- coupled with rate determining diffusive transport of the ions away from the surface. Previous work is revisited and inconsistencies arising from the assumption of a surface-controlled reaction are highlighted. The data have implications for ocean modeling of climate change.
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Affiliation(s)
- Xinmeng Fan
- Physical
and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, South Parks Road, Oxford OX1 3QZ, Great Britain
| | - Christopher Batchelor-McAuley
- Physical
and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, South Parks Road, Oxford OX1 3QZ, Great Britain
| | - Minjun Yang
- Physical
and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, South Parks Road, Oxford OX1 3QZ, Great Britain
| | - Richard G. Compton
- Physical
and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, South Parks Road, Oxford OX1 3QZ, Great Britain
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30
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Single-particle studies of the effects of RNA-protein interactions on the self-assembly of RNA virus particles. Proc Natl Acad Sci U S A 2022; 119:e2206292119. [PMID: 36122222 PMCID: PMC9522328 DOI: 10.1073/pnas.2206292119] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022] Open
Abstract
Understanding the pathways by which simple RNA viruses self-assemble from their coat proteins and RNA is of practical and fundamental interest. Although RNA-protein interactions are thought to play a critical role in the assembly, our understanding of their effects is limited because the assembly process is difficult to observe directly. We address this problem by using interferometric scattering microscopy, a sensitive optical technique with high dynamic range, to follow the in vitro assembly kinetics of more than 500 individual particles of brome mosaic virus (BMV)-for which RNA-protein interactions can be controlled by varying the ionic strength of the buffer. We find that when RNA-protein interactions are weak, BMV assembles by a nucleation-and-growth pathway in which a small cluster of RNA-bound proteins must exceed a critical size before additional proteins can bind. As the strength of RNA-protein interactions increases, the nucleation time becomes shorter and more narrowly distributed, but the time to grow a capsid after nucleation is largely unaffected. These results suggest that the nucleation rate is controlled by RNA-protein interactions, while the growth process is driven less by RNA-protein interactions and more by protein-protein interactions and intraprotein forces. The nucleated pathway observed with the plant virus BMV is strikingly similar to that previously observed with bacteriophage MS2, a phylogenetically distinct virus with a different host kingdom. These results raise the possibility that nucleated assembly pathways might be common to other RNA viruses.
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31
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Wan Z, Ma G, Zhang P, Wang S. Single-Protein Identification by Simultaneous Size and Charge Imaging Using Evanescent Scattering Microscopy. ACS Sens 2022; 7:2625-2633. [PMID: 36000947 PMCID: PMC9509435 DOI: 10.1021/acssensors.2c01008] [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] [Indexed: 01/31/2023]
Abstract
Separation and identification of different proteins is one of the most fundamental tasks in biochemistry that is typically achieved by electrophoresis and Western blot techniques. Yet, it is challenging to perform such an analysis with a small sample size. Using a principle analogous to these conventional approaches, we present a label-free, single-molecule technique to identify different proteins based on the difference in their size, charge, and antibody binding. We tether single protein molecules to a sensor surface with a flexible polymer and drive them into oscillation by applying an alternating electric field. By tracking the nanometer-scale oscillation of each protein molecule via high-resolution scattering microscopy, the size and charge of each protein molecule can be determined simultaneously. Changes induced by varying the buffer pH and antibody binding are also investigated, which allows us to further expand the separation ability and identify two different proteins in a mixture. We anticipate our technique will contribute to single protein analysis and biosensing.
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Affiliation(s)
- Zijian Wan
- Biodesign Center for Biosensors and Bioelectronics, Arizona State University, Tempe, Arizona 85287, USA
- School of Electrical, Computer and Energy Engineering, Arizona State University, Tempe, Arizona 85287, USA
| | - Guangzhong Ma
- Biodesign Center for Biosensors and Bioelectronics, Arizona State University, Tempe, Arizona 85287, USA
| | - Pengfei Zhang
- Biodesign Center for Biosensors and Bioelectronics, Arizona State University, Tempe, Arizona 85287, USA
| | - Shaopeng Wang
- Biodesign Center for Biosensors and Bioelectronics, Arizona State University, Tempe, Arizona 85287, USA
- School of Biological and Health Systems Engineering, Arizona State University, Tempe, Arizona 85287, USA
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32
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Bon P, Cognet L. On Some Current Challenges in High-Resolution Optical Bioimaging. ACS PHOTONICS 2022; 9:2538-2546. [PMID: 35996373 PMCID: PMC9389608 DOI: 10.1021/acsphotonics.2c00606] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
In this Perspective we propose our current point of view and a suggestive roadmap on the field of high-resolution optical microscopy dedicated to bioimaging. Motivated by biological applications, researchers have indeed devised an impressive amount of strategies to address the diverse constraints of imaging and studying biological matter down to the molecular scale, making this interdisciplinary research field a vibrant forum for creativity. Throughout the discussion, we highlight several striking recent successes in this quest. We also identify some next challenges still ahead to apprehend biological questions in increasingly complex living organisms for integrative studies in a minimally invasive manner.
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Affiliation(s)
- Pierre Bon
- Laboratoire
Photonique Numérique et Nanosciences, University of Bordeaux, F-33400 Talence, France
- LP2N
UMR 5298, Institut d’Optique Graduate
School, CNRS, F-33400 Talence, France
| | - Laurent Cognet
- Laboratoire
Photonique Numérique et Nanosciences, University of Bordeaux, F-33400 Talence, France
- LP2N
UMR 5298, Institut d’Optique Graduate
School, CNRS, F-33400 Talence, France
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33
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Evanescent scattering imaging of single protein binding kinetics and DNA conformation changes. Nat Commun 2022; 13:2298. [PMID: 35484120 PMCID: PMC9051210 DOI: 10.1038/s41467-022-30046-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2021] [Accepted: 04/04/2022] [Indexed: 11/08/2022] Open
Abstract
Evanescent illumination has been widely used to detect single biological macromolecules because it can notably enhance light-analyte interaction. However, the current evanescent single-molecule detection system usually requires specially designed microspheres or nanomaterials. Here we show that single protein detection and imaging can be realized on a plain glass surface by imaging the interference between the evanescent lights scattered by the single proteins and by the natural roughness of the cover glass. This allows us to quantify the sizes of single proteins, characterize the protein-antibody interactions at the single-molecule level, and analyze the heterogeneity of single protein binding behaviors. In addition, owing to the exponential distribution of evanescent field intensity, the evanescent imaging system can track the analyte axial movement with high resolution, which can be used to analyze the DNA conformation changes, providing one solution for detecting small molecules, such as microRNA. This work demonstrates a label-free single protein imaging method with ordinary consumables and may pave a road for detecting small biological molecules.
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34
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Cleary JM, Kim T, Cook ASI, McCormick LA, Hancock WO, Rice LM. Measurements and simulations of microtubule growth imply strong longitudinal interactions and reveal a role for GDP on the elongating end. eLife 2022; 11:75931. [PMID: 35420545 PMCID: PMC9064298 DOI: 10.7554/elife.75931] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2021] [Accepted: 04/13/2022] [Indexed: 11/13/2022] Open
Abstract
Microtubule polymerization dynamics result from the biochemical interactions of αβ-tubulin with the polymer end, but a quantitative understanding has been challenging to establish. We used interference reflection microscopy to make improved measurements of microtubule growth rates and growth fluctuations in the presence and absence of GTP hydrolysis. In the absence of GTP hydrolysis, microtubules grew steadily with very low fluctuations. These data were best described by a computational model implementing slow assembly kinetics, such that the rate of microtubule elongation is primarily limited by the rate of αβ-tubulin associations. With GTPase present, microtubules displayed substantially larger growth fluctuations than expected based on the no GTPase measurements. Our modeling showed that these larger fluctuations occurred because exposure of GDP-tubulin on the microtubule end transiently 'poisoned' growth, yielding a wider range of growth rates compared to GTP only conditions. Our experiments and modeling point to slow association kinetics (strong longitudinal interactions), such that drugs and regulatory proteins that alter microtubule dynamics could do so by modulating either the association or dissociation rate of tubulin from the microtubule tip. By causing slower growth, exposure of GDP tubulin at the growing microtubule end may be an important early event determining catastrophe.
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Affiliation(s)
- Joseph M Cleary
- Department of Biomedical Engineering, Pennsylvania State University, University Park, United States
| | - Tae Kim
- Departments of Biophysics and Biochemistry, The University of Texas Southwestern Medical Center, Dallas, United States
| | - Annan S I Cook
- Department of Biomedical Engineering, Pennsylvania State University, University Park, United States
| | - Lauren A McCormick
- Departments of Biophysics and Biochemistry, The University of Texas Southwestern Medical Center, Dallas, United States
| | - William O Hancock
- Department of Biomedical Engineering, Pennsylvania State University, University Park, United States
| | - Luke M Rice
- Departments of Biophysics and Biochemistry, The University of Texas Southwestern Medical Center, Dallas, United States
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35
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Su H, Xu D, Cheng SW, Li B, Liu S, Watanabe K, Taniguchi T, Berkelbach TC, Hone JC, Delor M. Dark-Exciton Driven Energy Funneling into Dielectric Inhomogeneities in Two-Dimensional Semiconductors. NANO LETTERS 2022; 22:2843-2850. [PMID: 35294835 DOI: 10.1021/acs.nanolett.1c04997] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
The optoelectronic and transport properties of two-dimensional transition metal dichalcogenide semiconductors (2D TMDs) are highly susceptible to external perturbation, enabling precise tailoring of material function through postsynthetic modifications. Here, we show that nanoscale inhomogeneities known as nanobubbles can be used for both strain and, less invasively, dielectric tuning of exciton transport in bilayer tungsten diselenide (WSe2). We use ultrasensitive spatiotemporally resolved optical scattering microscopy to directly image exciton transport, revealing that dielectric nanobubbles are surprisingly efficient at funneling and trapping excitons at room temperature, even though the energies of the bright excitons are negligibly affected. Our observations suggest that exciton funneling in dielectric inhomogeneities is driven by momentum-indirect (dark) excitons whose energies are more sensitive to dielectric perturbations than bright excitons. These results reveal a new pathway to control exciton transport in 2D semiconductors with exceptional spatial and energetic precision using dielectric engineering of dark state energetic landscapes.
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Affiliation(s)
- Haowen Su
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Ding Xu
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Shan-Wen Cheng
- Department of Chemistry, Columbia University, New York, New York 10027, United States
| | - Baichang Li
- Department of Mechanical Engineering, Columbia University, New York, New York 10027, United States
| | - Song Liu
- Department of Mechanical Engineering, Columbia University, New York, New York 10027, United States
| | | | | | - Timothy C Berkelbach
- Department of Chemistry, Columbia University, New York, New York 10027, United States
- Center for Computational Quantum Physics, Flatiron Institute, New York, New York 10010, United States
| | - James C Hone
- Department of Mechanical Engineering, Columbia University, New York, New York 10027, United States
| | - Milan Delor
- Department of Chemistry, Columbia University, New York, New York 10027, United States
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36
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Schnitzer B, Welkenhuysen N, Leake MC, Shashkova S, Cvijovic M. The effect of stress on biophysical characteristics of misfolded protein aggregates in living Saccharomyces cerevisiae cells. Exp Gerontol 2022; 162:111755. [PMID: 35240259 DOI: 10.1016/j.exger.2022.111755] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2021] [Revised: 02/11/2022] [Accepted: 02/24/2022] [Indexed: 11/28/2022]
Abstract
Aggregation of misfolded or damaged proteins is often attributed to numerous metabolic and neurodegenerative disorders. To reveal underlying mechanisms and cellular responses, it is crucial to investigate protein aggregate dynamics in cells. Here, we used super-resolution single-molecule microscopy to obtain biophysical characteristics of individual aggregates of a model misfolded protein ∆ssCPY* labelled with GFP. We demonstrated that oxidative and hyperosmotic stress lead to increased aggregate stoichiometries but not necessarily the total number of aggregates. Moreover, our data suggest the importance of the thioredoxin peroxidase Tsa1 for the controlled sequestering and clearance of aggregates upon both conditions. Our work provides novel insights into the understanding of the cellular response to stress via revealing the dynamical properties of stress-induced protein aggregates.
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Affiliation(s)
- Barbara Schnitzer
- Department of Mathematical Sciences, Chalmers University of Technology, 412 96 Gothenburg, Sweden; Department of Mathematical Sciences, University of Gothenburg, 412 96 Gothenburg, Sweden
| | - Niek Welkenhuysen
- Department of Mathematical Sciences, Chalmers University of Technology, 412 96 Gothenburg, Sweden; Department of Mathematical Sciences, University of Gothenburg, 412 96 Gothenburg, Sweden
| | - Mark C Leake
- Department of Physics, University of York, YO10 5DD York, UK; Department of Biology, University of York, YO10 5DD York, UK
| | - Sviatlana Shashkova
- Department of Mathematical Sciences, Chalmers University of Technology, 412 96 Gothenburg, Sweden; Department of Mathematical Sciences, University of Gothenburg, 412 96 Gothenburg, Sweden; Department of Physics, University of York, YO10 5DD York, UK.
| | - Marija Cvijovic
- Department of Mathematical Sciences, Chalmers University of Technology, 412 96 Gothenburg, Sweden; Department of Mathematical Sciences, University of Gothenburg, 412 96 Gothenburg, Sweden.
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37
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Hsiao YT, Tsai CN, Chen TH, Hsieh CL. Label-Free Dynamic Imaging of Chromatin in Live Cell Nuclei by High-Speed Scattering-Based Interference Microscopy. ACS NANO 2022; 16:2774-2788. [PMID: 34967599 DOI: 10.1021/acsnano.1c09748] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Chromatin is a DNA-protein complex that is densely packed in the cell nucleus. The nanoscale chromatin compaction plays critical roles in the modulation of cell nuclear processes. However, little is known about the spatiotemporal dynamics of chromatin compaction states because it remains difficult to quantitatively measure the chromatin compaction level in live cells. Here, we demonstrate a strategy, referenced as DYNAMICS imaging, for mapping chromatin organization in live cell nuclei by analyzing the dynamic scattering signal of molecular fluctuations. Highly sensitive optical interference microscopy, coherent brightfield (COBRI) microscopy, is implemented to detect the linear scattering of unlabeled chromatin at a high speed. A theoretical model is established to determine the local chromatin density from the statistical fluctuation of the measured scattering signal. DYNAMICS imaging allows us to reconstruct a speckle-free nucleus map that is highly correlated to the fluorescence chromatin image. Moreover, together with calibration based on nanoparticle colloids, we show that the DYNAMICS signal is sensitive to the chromatin compaction level at the nanoscale. We confirm the effectiveness of DYNAMICS imaging in detecting the condensation and decondensation of chromatin induced by chemical drug treatments. Importantly, the stable scattering signal supports a continuous observation of the chromatin condensation and decondensation processes for more than 1 h. Using this technique, we detect transient and nanoscopic chromatin condensation events occurring on a time scale of a few seconds. Label-free DYNAMICS imaging offers the opportunity to investigate chromatin conformational dynamics and to explore their significance in various gene activities.
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Affiliation(s)
- Yi-Teng Hsiao
- Institute of Atomic and Molecular Sciences (IAMS), Academia Sinica, 1 Roosevelt Road Section 4, Taipei 10617, Taiwan
| | - Chia-Ni Tsai
- Institute of Atomic and Molecular Sciences (IAMS), Academia Sinica, 1 Roosevelt Road Section 4, Taipei 10617, Taiwan
| | - Te-Hsin Chen
- Institute of Atomic and Molecular Sciences (IAMS), Academia Sinica, 1 Roosevelt Road Section 4, Taipei 10617, Taiwan
| | - Chia-Lung Hsieh
- Institute of Atomic and Molecular Sciences (IAMS), Academia Sinica, 1 Roosevelt Road Section 4, Taipei 10617, Taiwan
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38
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A review of optical methods for ultrasensitive detection and characterization of nanoparticles in liquid media with a focus on the wide field surface plasmon microscopy. Anal Chim Acta 2022; 1204:339633. [DOI: 10.1016/j.aca.2022.339633] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Revised: 02/16/2022] [Accepted: 02/17/2022] [Indexed: 12/27/2022]
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39
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Landenberger B, Yatish, Rohrbach A. Towards non-blind optical tweezing by finding 3D refractive index changes through off-focus interferometric tracking. Nat Commun 2021; 12:6922. [PMID: 34836958 PMCID: PMC8626468 DOI: 10.1038/s41467-021-27262-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2020] [Accepted: 11/05/2021] [Indexed: 11/09/2022] Open
Abstract
In modern 3D microscopy, holding and orienting arbitrary biological objects with optical forces instead of using coverslips and gel cylinders is still a vision. Although optical trapping forces are strong enough and related photodamage is acceptable, the precise (re-) orientation of large specimen with multiple optical traps is difficult, since they grab blindly at the object and often slip off. Here, we present an approach to localize and track regions with increased refractive index using several holographic optical traps with a single camera in an off-focus position. We estimate the 3D grabbing positions around several trapping foci in parallel through analysis of the beam deformations, which are continuously measured by defocused camera images of cellular structures inside cell clusters. Although non-blind optical trapping is still a vision, this is an important step towards fully computer-controlled orientation and feature-optimized laser scanning of sub-mm sized biological specimen for future 3D light microscopy.
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Affiliation(s)
- Benjamin Landenberger
- grid.5963.9Laboratory for Bio- and Nano-Photonics, Department of Microsystems Engineering-IMTEK, University of Freiburg, 79110 Freiburg, Germany ,grid.5963.9BIOSS Centre for Biological Signalling Studies, University of Freiburg, Freiburg, Germany
| | - Yatish
- grid.5963.9Laboratory for Bio- and Nano-Photonics, Department of Microsystems Engineering-IMTEK, University of Freiburg, 79110 Freiburg, Germany ,CIBSS - Centre for Integrative Biological Signalling Studies, Freiburg, Germany ,grid.5963.9Spemann Graduate School of Biology and Medicine (SGBM), University of Freiburg, Freiburg, Germany
| | - Alexander Rohrbach
- Laboratory for Bio- and Nano-Photonics, Department of Microsystems Engineering-IMTEK, University of Freiburg, 79110, Freiburg, Germany. .,BIOSS Centre for Biological Signalling Studies, University of Freiburg, Freiburg, Germany. .,CIBSS - Centre for Integrative Biological Signalling Studies, Freiburg, Germany.
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40
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Melo L, Hui A, Kowal M, Boateng E, Poursorkh Z, Rocheron E, Wong J, Christy A, Grant E. Size Distributions of Gold Nanoparticles in Solution Measured by Single-Particle Mass Photometry. J Phys Chem B 2021; 125:12466-12475. [PMID: 34734725 DOI: 10.1021/acs.jpcb.1c05557] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Specialized applications of nanoparticles often call for particular, well-characterized particle size distributions in solution, but this property can prove difficult to measure. High-throughput methods, such as dynamic light scattering, detect nanoparticles in solution with an efficiency that scales with diameter to the sixth power. This diminishes the accuracy of any determination that must span a range of particle sizes. The accurate classification of broadly distributed systems thus requires very large numbers of measurements. Mass-filtered particle-sensing techniques offer a better dynamic range but are labor-intensive and so have low throughput. Progress in many areas of nanotechnology requires a faster, lower-cost, and more accurate measure of particle size distributions, particularly for diameters smaller than 20 nm. Here, we present a tailored interferometric microscope system, combined with a high-speed image-processing strategy, optimized for real-time particle tracking that determines accurate size distributions in nominal 5, 10, and 15 nm colloidal gold nanoparticle systems by automatically sensing and classifying thousands of single particles sampled from solution at rates as high as 4000 particles per minute. We demonstrate this method by sensing the irreversible binding of gold nanoparticles to poly-d-lysine functionalized coverslips. Variations in the single-particle signal as a function of time and mass, calibrated by TEM, show clear evidence for the presence of diffusion-limited transport that most affects larger particles in solution.
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Affiliation(s)
- Luke Melo
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Angus Hui
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Matt Kowal
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Eric Boateng
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Zahra Poursorkh
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Edène Rocheron
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Jake Wong
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Ashton Christy
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Edward Grant
- Department of Chemistry, The University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
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41
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Priest L, Peters JS, Kukura P. Scattering-based Light Microscopy: From Metal Nanoparticles to Single Proteins. Chem Rev 2021; 121:11937-11970. [PMID: 34587448 PMCID: PMC8517954 DOI: 10.1021/acs.chemrev.1c00271] [Citation(s) in RCA: 39] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2021] [Indexed: 02/02/2023]
Abstract
Our ability to detect, image, and quantify nanoscopic objects and molecules with visible light has undergone dramatic improvements over the past few decades. While fluorescence has historically been the go-to contrast mechanism for ultrasensitive light microscopy due to its superior background suppression and specificity, recent developments based on light scattering have reached single-molecule sensitivity. They also have the advantages of universal applicability and the ability to obtain information about the species of interest beyond its presence and location. Many of the recent advances are driven by novel approaches to illumination, detection, and background suppression, all aimed at isolating and maximizing the signal of interest. Here, we review these developments grouped according to the basic principles used, namely darkfield imaging, interferometric detection, and surface plasmon resonance microscopy.
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Affiliation(s)
| | | | - Philipp Kukura
- Physical and Theoretical
Chemistry Laboratory, Department of Chemistry, University of Oxford, South Parks Road, Oxford OX1 3QZ, United Kingdom
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42
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Hasnain S, Mugnai ML, Thirumalai D. Effects of Gold Nanoparticles on the Stepping Trajectories of Kinesin. J Phys Chem B 2021; 125:10432-10444. [PMID: 34499499 DOI: 10.1021/acs.jpcb.1c02218] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
A substantial increase in the temporal resolution of the stepping of dimeric molecular motors is possible by tracking the position of a large gold nanoparticle (GNP) attached to a labeled site on one of the heads. This technique was employed to measure the stepping trajectories of conventional kinesin (Kin1) using the time-dependent position of the GNP as a proxy. The trajectories revealed that the detached head always passes to the right of the head that is tightly bound to the microtubule (MT) during a step. In interpreting the results of such experiments, it is assumed that the GNP does not significantly alter the diffusive motion of the detached head. We used coarse-grained simulations of a system consisting of the MT-Kin1 complex with and without attached GNP to investigate how the stepping trajectories are affected. The two significant findings are: (1) The GNP does not faithfully track the position of the stepping head, and (2) the rightward bias is typically exaggerated by the GNP. Both these findings depend on the precise residue position to which the GNP is attached. Surprisingly, the stepping trajectories of kinesin are not significantly affected if, in addition to the GNP, a 1 μm diameter cargo is attached to the coiled coil. Our simulations suggest the effects of the large probe have to be considered when inferring the stepping mechanisms using GNP tracking experiments.
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Affiliation(s)
- Sabeeha Hasnain
- Department of Chemistry, The University of Texas at Austin, Austin 78712, Texas, United States
| | - Mauro L Mugnai
- Department of Chemistry, The University of Texas at Austin, Austin 78712, Texas, United States
| | - D Thirumalai
- Department of Chemistry, The University of Texas at Austin, Austin 78712, Texas, United States
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43
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Ghosh S, Li N, Xiong Y, Ju YG, Rathslag MP, Onal EG, Falkiewicz E, Kohli M, Cunningham BT. A compact photonic resonator absorption microscope for point of care digital resolution nucleic acid molecular diagnostics. BIOMEDICAL OPTICS EXPRESS 2021; 12:4637-4650. [PMID: 34513214 PMCID: PMC8407813 DOI: 10.1364/boe.427475] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/12/2021] [Revised: 06/24/2021] [Accepted: 06/27/2021] [Indexed: 05/05/2023]
Abstract
Rapid, sensitive, and selective detection of nucleic acid biomarkers for health diagnostic applications becomes feasible for point of care scenarios when the detection instrument is inexpensive, simple, and robust. Here, we report the design, implementation, and characterization of a point of care instrument for photonic resonator absorption microscopy (PRAM) that takes advantage of resonant optical coupling between plasmonic gold nanoparticle tags and a photonic crystal (PC) surface. Matching the PC resonant wavelength to the gold nanoparticle's surface plasmon wavelength generates localized and efficient quenching of the PC resonant reflection intensity, resulting in the ability to clearly detect and count individual gold nanoparticles when they are captured on the PC surface. Surface-captured nanoparticles are observed by illuminating the PC at normal incidence with polarized light from a low-intensity red LED, and recording of PC reflected intensity on an inexpensive CMOS image sensor. A contrast limited adaptive histogram equalization (CLAHE) image processing algorithm was applied to derive counts of captured nanoparticles. The instrument is utilized in the context of an activate capture + digital counting (AC + DC) assay for a specific miRNA sequence, using nucleic acid toehold probes applied to gold nano-urchin (AuNU) nanoparticles to achieve 160 aM detection limits in a 30 min. assay.
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Affiliation(s)
- Shreya Ghosh
- Holonyak Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- S. G. and N. L. contributed equally to this work
| | - Nantao Li
- Holonyak Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- S. G. and N. L. contributed equally to this work
| | - Yanyu Xiong
- Holonyak Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Young-Gu Ju
- Department of Physics Education, Kyungpook National University, 80 Daehak-ro, Sangyeok-dong, Buk-gu, Daegu, Republic of Korea
| | - Michael P Rathslag
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Ege G Onal
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Erika Falkiewicz
- School of Integrative Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
| | - Manish Kohli
- Huntsman Cancer Institute, University of Utah, Salt Lake City, UT 84112, USA
| | - Brian T Cunningham
- Holonyak Micro and Nanotechnology Laboratory, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Department of Bioengineering, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
- Cancer Center at Illinois, University of Illinois at Urbana-Champaign, Urbana, IL 61801, USA
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44
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Mistry A. Ion dynamics in battery materials imaged rapidly. Nature 2021; 594:503-504. [PMID: 34163050 DOI: 10.1038/d41586-021-01600-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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45
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Moteki N. Measuring the complex forward-scattering amplitude of single particles by self-reference interferometry: CAS-v1 protocol. OPTICS EXPRESS 2021; 29:20688-20714. [PMID: 34266153 DOI: 10.1364/oe.423175] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2021] [Accepted: 05/18/2021] [Indexed: 06/13/2023]
Abstract
Theoretical and experimental bases are given for measuring the complex forward-scattering amplitude of single particles through self-reference interferometry. Our analyses reveal the nondimensional parameters that primarily control the accuracy and resolution of the complex amplitude data. We propose a measurement protocol, Complex Amplitude Sensing version 1 (CAS-v1), for effectively utilizing self-reference interferometry as a universal tool for inline measurements of the complex forward-scattering amplitude of single sub- and super-micron particles suspended in a fluid flow. The CAS-v1 protocol will facilitate applications of self-reference interferometry to real-time particle measurements in the industrial, biomedical, and environmental sciences.
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46
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Sharma D, Lim RYH, Pfohl T, Ekinci Y. Surface-modified elastomeric nanofluidic devices for single nanoparticle trapping. MICROSYSTEMS & NANOENGINEERING 2021; 7:46. [PMID: 34567759 PMCID: PMC8433227 DOI: 10.1038/s41378-021-00273-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/26/2020] [Revised: 01/14/2021] [Accepted: 04/15/2021] [Indexed: 06/13/2023]
Abstract
Our work focuses on the development of simpler and effective production of nanofluidic devices for high-throughput charged single nanoparticle trapping in an aqueous environment. Single nanoparticle confinement using electrostatic trapping has been an effective approach to study the fundamental properties of charged molecules under a controlled aqueous environment. Conventionally, geometry-induced electrostatic trapping devices are fabricated using SiOx-based substrates and comprise nanochannels imbedded with nanoindentations such as nanopockets, nanoslits and nanogrids. These geometry-induced electrostatic trapping devices can only trap negatively charged particles, and therefore, to trap positively charged particles, modification of the device surface is required. However, the surface modification process of a nanofluidic device is cumbersome and time consuming. Therefore, here, we present a novel approach for the development of surface-modified geometry-induced electrostatic trapping devices that reduces the surface modification time from nearly 5 days to just a few hours. We utilized polydimethylsiloxane for the development of a surface-modified geometry-induced electrostatic trapping device. To demonstrate the device efficiency and success of the surface modification procedure, a comparison study between a PDMS-based geometry-induced electrostatic trapping device and the surface-modified polydimethylsiloxane-based device was performed. The device surface was modified with two layers of polyelectrolytes (1: poly(ethyleneimine) and 2: poly(styrenesulfonate)), which led to an overall negatively charged surface. Our experiments revealed the presence of a homogeneous surface charge density inside the fluidic devices and equivalent trapping strengths for the surface-modified and native polydimethylsiloxane-based geometry-induced electrostatic trapping devices. This work paves the way towards broader use of geometry-induced electrostatic trapping devices in the fields of biosensing, disease diagnosis, molecular analysis, fluid quality control and pathogen detection.
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Affiliation(s)
- Deepika Sharma
- Swiss Nanoscience Institute, 4056 Basel, Switzerland
- Biozentrum, University of Basel, 4056 Basel, Switzerland
- Laboratory for Micro and Nanotechnology, Paul Scherrer Institut, 5232 Villigen, Switzerland
| | - Roderick Y. H. Lim
- Swiss Nanoscience Institute, 4056 Basel, Switzerland
- Biozentrum, University of Basel, 4056 Basel, Switzerland
| | - Thomas Pfohl
- Swiss Nanoscience Institute, 4056 Basel, Switzerland
- Institute of Physics, University of Freiburg, D-79104 Freiburg, Germany
| | - Yasin Ekinci
- Swiss Nanoscience Institute, 4056 Basel, Switzerland
- Laboratory for Micro and Nanotechnology, Paul Scherrer Institut, 5232 Villigen, Switzerland
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47
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Merryweather AJ, Schnedermann C, Jacquet Q, Grey CP, Rao A. Operando optical tracking of single-particle ion dynamics in batteries. Nature 2021; 594:522-528. [PMID: 34163058 DOI: 10.1038/s41586-021-03584-2] [Citation(s) in RCA: 52] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2020] [Accepted: 04/27/2021] [Indexed: 02/06/2023]
Abstract
The key to advancing lithium-ion battery technology-in particular, fast charging-is the ability to follow and understand the dynamic processes occurring in functioning materials under realistic conditions, in real time and on the nano- to mesoscale. Imaging of lithium-ion dynamics during battery operation (operando imaging) at present requires sophisticated synchrotron X-ray1-7 or electron microscopy8,9 techniques, which do not lend themselves to high-throughput material screening. This limits rapid and rational materials improvements. Here we introduce a simple laboratory-based, optical interferometric scattering microscope10-13 to resolve nanoscopic lithium-ion dynamics in battery materials, and apply it to follow cycling of individual particles of the archetypal cathode material14,15, LixCoO2, within an electrode matrix. We visualize the insulator-to-metal, solid solution and lithium ordering phase transitions directly and determine rates of lithium diffusion at the single-particle level, identifying different mechanisms on charge and discharge. Finally, we capture the dynamic formation of domain boundaries between different crystal orientations associated with the monoclinic lattice distortion at the Li0.5CoO2 composition16. The high-throughput nature of our methodology allows many particles to be sampled across the entire electrode and in future will enable exploration of the role of dislocations, morphologies and cycling rate on battery degradation. The generality of our imaging concept means that it can be applied to study any battery electrode, and more broadly, systems where the transport of ions is associated with electronic or structural changes. Such systems include nanoionic films, ionic conducting polymers, photocatalytic materials and memristors.
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Affiliation(s)
- Alice J Merryweather
- Cavendish Laboratory, University of Cambridge, Cambridge, UK.,Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK
| | | | - Quentin Jacquet
- Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK
| | - Clare P Grey
- Yusuf Hamied Department of Chemistry, University of Cambridge, Cambridge, UK.
| | - Akshay Rao
- Cavendish Laboratory, University of Cambridge, Cambridge, UK.
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48
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Nong D, Haviland ZK, Kuntz KV, Tien M, Anderson CT, Hancock WO. Integrated multi-wavelength microscope combining TIRFM and IRM modalities for imaging cellulases and other processive enzymes. BIOMEDICAL OPTICS EXPRESS 2021; 12:3253-3264. [PMID: 34221658 PMCID: PMC8221963 DOI: 10.1364/boe.423798] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2021] [Revised: 04/23/2021] [Accepted: 04/28/2021] [Indexed: 06/13/2023]
Abstract
We describe a multimodal microscope for visualizing processive enzymes moving on immobilized substrates. The instrument combines interference reflection microscopy (IRM) with multi-wavelength total internal reflectance fluorescence microscopy (TIRFM). The microscope can localize quantum dots with a precision of 2.8 nm at 100 frames/s, and was used to image the dynamics of the cellulase, Cel7a interacting with surface-immobilized cellulose. The instrument, which was built with off-the-shelf components and is controlled by custom software, is suitable for tracking other degradative enzymes such as collagenases, as well as motor proteins moving along immobilized tracks.
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Affiliation(s)
- Daguan Nong
- Department of Biomedical Engineering, Pennsylvania State University, University Park, PA 16802, USA
| | - Zachary K. Haviland
- Department of Biomedical Engineering, Pennsylvania State University, University Park, PA 16802, USA
| | - Kate Vasquez Kuntz
- Department of Biology, Pennsylvania State University, University Park, PA 16802, USA
| | - Ming Tien
- Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA 16802, USA
| | - Charles T. Anderson
- Department of Biology, Pennsylvania State University, University Park, PA 16802, USA
| | - William O. Hancock
- Department of Biomedical Engineering, Pennsylvania State University, University Park, PA 16802, USA
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49
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Label-free, mass-sensitive single-molecule imaging using interferometric scattering microscopy. Essays Biochem 2021; 65:81-91. [PMID: 33296454 DOI: 10.1042/ebc20200023] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2020] [Revised: 11/11/2020] [Accepted: 11/16/2020] [Indexed: 12/27/2022]
Abstract
Single-molecule imaging has mostly been restricted to the use of fluorescence labelling as a contrast mechanism due to its superior ability to visualise molecules of interest on top of an overwhelming background of other molecules. Recently, interferometric scattering (iSCAT) microscopy has demonstrated the detection and imaging of single biomolecules based on light scattering without the need for fluorescent labels. Significant improvements in measurement sensitivity combined with a dependence of scattering signal on object size have led to the development of mass photometry, a technique that measures the mass of individual molecules and thereby determines mass distributions of biomolecule samples in solution. The experimental simplicity of mass photometry makes it a powerful tool to analyse biomolecular equilibria quantitatively with low sample consumption within minutes. When used for label-free imaging of reconstituted or cellular systems, the strict size-dependence of the iSCAT signal enables quantitative measurements of processes at size scales reaching from single-molecule observations during complex assembly up to mesoscopic dynamics of cellular components and extracellular protrusions. In this review, I would like to introduce the principles of this emerging imaging technology and discuss examples that show how mass-sensitive iSCAT can be used as a strong complement to other routine techniques in biochemistry.
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50
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Zhang P, Ma G, Wan Z, Wang S. Quantification of Single-Molecule Protein Binding Kinetics in Complex Media with Prism-Coupled Plasmonic Scattering Imaging. ACS Sens 2021; 6:1357-1366. [PMID: 33720692 DOI: 10.1021/acssensors.0c02729] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Measuring molecular binding is critical for understanding molecular-scale biological processes and screening drugs. Label-free detection technologies, such as surface plasmon resonance (SPR), have been developed for analyzing analytes in their natural forms. However, the specificity of these methods is solely relying on surface chemistry and has often nonspecific binding issues when working with samples in complex media. Herein, we show that single-molecule-based measurement can distinct specific and nonspecific binding processes by quantifying the mass and binding dynamics of individual-bound analyte molecules, thus allowing the binding kinetic analysis in complex media such as serum. In addition, this single-molecule imaging is realized in a commonly used Kretschmann prism-coupled SPR system, thus providing a convenient solution to realize high-resolution imaging on widely used prism-coupled SPR systems.
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Affiliation(s)
- Pengfei Zhang
- Biodesign Center for Bioelectronics and Biosensors, Arizona State University, Tempe, Arizona 85287 United States
| | - Guangzhong Ma
- Biodesign Center for Bioelectronics and Biosensors, Arizona State University, Tempe, Arizona 85287 United States
| | - Zijian Wan
- Biodesign Center for Bioelectronics and Biosensors, Arizona State University, Tempe, Arizona 85287 United States
- School of Electrical, Energy and Computer Engineering, Arizona State University, Tempe, Arizona 85287, United States
| | - Shaopeng Wang
- Biodesign Center for Bioelectronics and Biosensors, Arizona State University, Tempe, Arizona 85287 United States
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