1
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Stenspil SG, Chen J, Liisberg MB, Flood AH, Laursen BW. Control of the fluorescence lifetime in dye based nanoparticles. Chem Sci 2024; 15:5531-5538. [PMID: 38638234 PMCID: PMC11023049 DOI: 10.1039/d3sc05496a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2023] [Accepted: 02/27/2024] [Indexed: 04/20/2024] Open
Abstract
Fluorescent dye based nanoparticles (NPs) have received increased interest due to their high brightness and stability. In fluorescence microscopy and assays, high signal to background ratios and multiple channels of detection are highly coveted. To this end, time-resolved imaging offers suppression of background and temporal separation of spectrally overlapping signals. Although dye based NPs and time-resolved imaging are widely used individually, the combination of the two is uncommon. This is likely due to that dye based NPs in general display shortened and non-mono-exponential lifetimes. The lower quality of the lifetime signal from dyes in NPs is caused by aggregation caused quenching (ACQ) and energy migration to dark states in NPs. Here, we report a solution to this problem by the use of the small-molecule ionic isolation lattices (SMILES) concept to prevent ACQ. Additionally, incorporation of FRET pairs of dyes locks the exciton on the FRET acceptor providing control of the fluorescence lifetime. We demonstrate how SMILES NPs with a few percent rhodamine and diazaoxatriangulenium FRET acceptors imbedded with a cyanine donor dye give identical emission spectra and high quantum yields but very different fluorescence lifetimes of 3 ns and 26 ns, respectively. The two spectrally identical NPs are easily distinguished at the single particle level in fluorescence lifetime imaging. The doping approach for dye based NPs provides predictable fluorescence lifetimes and allows for these bright imaging reagents to be used in time-resolved imaging detection modalities.
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Affiliation(s)
- Stine G Stenspil
- Nano-Science Center & Department of Chemistry, University of Copenhagen Universitetsparken 5 2100 København Ø Denmark
| | - Junsheng Chen
- Nano-Science Center & Department of Chemistry, University of Copenhagen Universitetsparken 5 2100 København Ø Denmark
| | - Mikkel B Liisberg
- Nano-Science Center & Department of Chemistry, University of Copenhagen Universitetsparken 5 2100 København Ø Denmark
| | - Amar H Flood
- Department of Chemistry, Indiana University 800 East Kirkwood Avenue Bloomington Indiana 47405 USA
| | - Bo W Laursen
- Nano-Science Center & Department of Chemistry, University of Copenhagen Universitetsparken 5 2100 København Ø Denmark
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2
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Jana S, Nevskyi O, Höche H, Trottenberg L, Siemes E, Enderlein J, Fürstenberg A, Wöll D. Local Water Content in Polymer Gels Measured with Super-Resolved Fluorescence Lifetime Imaging. Angew Chem Int Ed Engl 2024; 63:e202318421. [PMID: 38165135 DOI: 10.1002/anie.202318421] [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: 12/01/2023] [Revised: 12/21/2023] [Accepted: 01/02/2024] [Indexed: 01/03/2024]
Abstract
Water molecules play an important role in the structure, function, and dynamics of (bio-) materials. A direct access to the number of water molecules in nanoscopic volumes can thus give new molecular insights into materials and allow for fine-tuning their properties in sophisticated applications. The determination of the local water content has become possible by the finding that H2 O quenches the fluorescence of red-emitting dyes. Since deuterated water, D2 O, does not induce significant fluorescence quenching, fluorescence lifetime measurements performed in different H2 O/D2 O-ratios yield the local water concentration. We combined this effect with the recently developed fluorescence lifetime single molecule localization microscopy imaging (FL-SMLM) in order to nanoscopically determine the local water content in microgels, i.e. soft hydrogel particles consisting of a cross-linked polymer swollen in water. The change in water content of thermo-responsive microgels when changing from their swollen state at room temperature to a collapsed state at elevated temperature could be analyzed. A clear decrease in water content was found that was, to our surprise, rather uniform throughout the entire microgel volume. Only a slightly higher water content around the dye was found in the periphery with respect to the center of the swollen microgels.
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Affiliation(s)
- Sankar Jana
- Institute of Physical Chemistry, RWTH Aachen University, Landoltweg 2, 52074, Aachen, Germany
| | - Oleksii Nevskyi
- Third Institute of Physics - Biophysics, Georg August University, 37077, Göttingen, Germany
| | - Hannah Höche
- Institute of Physical Chemistry, RWTH Aachen University, Landoltweg 2, 52074, Aachen, Germany
| | - Leon Trottenberg
- Institute of Physical Chemistry, RWTH Aachen University, Landoltweg 2, 52074, Aachen, Germany
| | - Eric Siemes
- Institute of Physical Chemistry, RWTH Aachen University, Landoltweg 2, 52074, Aachen, Germany
| | - Jörg Enderlein
- Third Institute of Physics - Biophysics, Georg August University, 37077, Göttingen, Germany
- Cluster of Excellence "Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells" (MBExC), Georg August University, 37077, Göttingen, Germany
| | - Alexandre Fürstenberg
- Department of Physical Chemistry and Department of Inorganic and Analytical Chemistry, University of Geneva, 1211, Geneva, Switzerland
| | - Dominik Wöll
- Institute of Physical Chemistry, RWTH Aachen University, Landoltweg 2, 52074, Aachen, Germany
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3
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Chen T, Karedla N, Enderlein J. Measuring sub-nanometer undulations at microsecond temporal resolution with metal- and graphene-induced energy transfer spectroscopy. Nat Commun 2024; 15:1789. [PMID: 38413608 PMCID: PMC10899616 DOI: 10.1038/s41467-024-45822-x] [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: 06/01/2023] [Accepted: 02/01/2024] [Indexed: 02/29/2024] Open
Abstract
Out-of-plane fluctuations, also known as stochastic displacements, of biological membranes play a crucial role in regulating many essential life processes within cells and organelles. Despite the availability of various methods for quantifying membrane dynamics, accurately quantifying complex membrane systems with rapid and tiny fluctuations, such as mitochondria, remains a challenge. In this work, we present a methodology that combines metal/graphene-induced energy transfer (MIET/GIET) with fluorescence correlation spectroscopy (FCS) to quantify out-of-plane fluctuations of membranes with simultaneous spatiotemporal resolution of approximately one nanometer and one microsecond. To validate the technique and spatiotemporal resolution, we measure bending undulations of model membranes. Furthermore, we demonstrate the versatility and applicability of MIET/GIET-FCS for studying diverse membrane systems, including the widely studied fluctuating membrane system of human red blood cells, as well as two unexplored membrane systems with tiny fluctuations, a pore-spanning membrane, and mitochondrial inner/outer membranes.
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Affiliation(s)
- Tao Chen
- Third Institute of Physics - Biophysics, Georg August University, Friedrich-Hund-Platz 1, Göttingen, 37077, Germany
| | - Narain Karedla
- The Rosalind Franklin Institute, Harwell Campus, Didcot, OX11 OFA, UK
- Kennedy Institute of Rheumatology, University of Oxford, Roosevelt Drive, Oxford, OX3 7LF, UK
| | - Jörg Enderlein
- Third Institute of Physics - Biophysics, Georg August University, Friedrich-Hund-Platz 1, Göttingen, 37077, Germany.
- Cluster of Excellence "Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells" (MBExC), Universitätsmedizin Göttingen, Robert-Koch-Str. 40, Göttingen, 37075, Germany.
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4
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Bech Risum A, Hinrich JL, Rinnan Å. Multiway Decomposition Followed by Reconvolution of Fluorescence Time Decay Data. Anal Chem 2023; 95:18697-18708. [PMID: 38081791 DOI: 10.1021/acs.analchem.3c00634] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2023]
Abstract
The use of time-resolved emission spectroscopy (TRES) is increasing as these instruments become more available, and the prices are decreasing, especially with the development of cheaper LED light sources. In this article, we propose a new methodology for analyzing TRES data. It combines two existing methods: PARAFAC and reconvolution. PARAFAC is a soft modeling curve resolution technique which has been extensively applied to steady-state fluorescence data, and reconvolution is the most common method for fitting TRES data. The proposed method is compared to two well-established methods of analyzing these data, namely, global reconvolution and tail fitting. In addition, we compare our approach with the SLICING method proposed in 2021 by Devos et al. which is also based on a soft model, but does not include the reconvolution step. All of these methods follow the assumption that the measured fluorescence signal is a linear combination of the underlying fluorophores. The comparison is based on a measured TRES data set with a mixture of three fluorophores and two sets of simulated data sets with up to four fluorophores. The results show that global fitting works well as long as the signal-to-noise ratio (SNR) is high (more than 15 dB), independent of the spacing between the emission peak maxima. SLICING does not give as good estimates of the time decay, mainly due to the challenge of defining the tail. Our proposed method gives robust and accurate results, outperforming the other techniques in cases with broad instrument response functions and high noise levels with SNRs down to 5 dB.
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Affiliation(s)
- Anne Bech Risum
- Department of Food Science, University of Copenhagen, Rolighedsvej 26, DK-1958 Frederiksberg C, Denmark
| | - Jesper Løve Hinrich
- Department of Food Science, University of Copenhagen, Rolighedsvej 26, DK-1958 Frederiksberg C, Denmark
| | - Åsmund Rinnan
- Department of Food Science, University of Copenhagen, Rolighedsvej 26, DK-1958 Frederiksberg C, Denmark
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5
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Gross N, Kuhs CT, Ostovar B, Chiang WY, Wilson KS, Volek TS, Faitz ZM, Carlin CC, Dionne JA, Zanni MT, Gruebele M, Roberts ST, Link S, Landes CF. Progress and Prospects in Optical Ultrafast Microscopy in the Visible Spectral Region: Transient Absorption and Two-Dimensional Microscopy. THE JOURNAL OF PHYSICAL CHEMISTRY. C, NANOMATERIALS AND INTERFACES 2023; 127:14557-14586. [PMID: 37554548 PMCID: PMC10406104 DOI: 10.1021/acs.jpcc.3c02091] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/29/2023] [Revised: 06/24/2023] [Indexed: 08/10/2023]
Abstract
Ultrafast optical microscopy, generally employed by incorporating ultrafast laser pulses into microscopes, can provide spatially resolved mechanistic insight into scientific problems ranging from hot carrier dynamics to biological imaging. This Review discusses the progress in different ultrafast microscopy techniques, with a focus on transient absorption and two-dimensional microscopy. We review the underlying principles of these techniques and discuss their respective advantages and applicability to different scientific questions. We also examine in detail how instrument parameters such as sensitivity, laser power, and temporal and spatial resolution must be addressed. Finally, we comment on future developments and emerging opportunities in the field of ultrafast microscopy.
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Affiliation(s)
- Niklas Gross
- Department
of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Christopher T. Kuhs
- Army
Research Laboratory-South, U.S. Army DEVCOM, Houston, Texas 77005, United States
| | - Behnaz Ostovar
- Department
of Electrical and Computer Engineering, Rice University, Houston, Texas 77005, United States
| | - Wei-Yi Chiang
- Department
of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Kelly S. Wilson
- Department
of Chemistry, University of Texas at Austin, Austin, Texas 78712, United States
| | - Tanner S. Volek
- Department
of Chemistry, University of Texas at Austin, Austin, Texas 78712, United States
| | - Zachary M. Faitz
- Department
of Chemistry, University of Wisconsin−Madison, Madison, Wisconsin 53706, United States
| | - Claire C. Carlin
- Department
of Materials Science and Engineering, Stanford
University, Stanford, California 94305, United States
| | - Jennifer A. Dionne
- Department
of Materials Science and Engineering, Stanford
University, Stanford, California 94305, United States
- Department
of Radiology, Molecular Imaging Program at Stanford (MIPS), Stanford University School of Medicine, Stanford, California 94305, United States
| | - Martin T. Zanni
- Department
of Chemistry, University of Wisconsin−Madison, Madison, Wisconsin 53706, United States
| | - Martin Gruebele
- Department
of Chemistry, University of Illinois at
Urbana−Champaign, Urbana, Illinois 61801, United States
- Department
of Physics, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
- Center
for Biophysics and Quantitative Biology, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, United States
| | - Sean T. Roberts
- Department
of Chemistry, University of Texas at Austin, Austin, Texas 78712, United States
| | - Stephan Link
- Department
of Chemistry, Rice University, Houston, Texas 77005, United States
- Department
of Electrical and Computer Engineering, Rice University, Houston, Texas 77005, United States
| | - Christy F. Landes
- Department
of Chemistry, Rice University, Houston, Texas 77005, United States
- Department
of Electrical and Computer Engineering, Rice University, Houston, Texas 77005, United States
- Department
of Chemical and Biomolecular Engineering, Rice University, Houston, Texas 77005, United States
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6
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Wypysek SK, Centeno SP, Gronemann T, Wöll D, Richtering W. Hollow, pH-Sensitive Microgels as Nanocontainers for the Encapsulation of Proteins. Macromol Biosci 2023; 23:e2200456. [PMID: 36605024 DOI: 10.1002/mabi.202200456] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Revised: 12/22/2022] [Indexed: 01/07/2023]
Abstract
Depending on their architectural and chemical design, microgels can selectively take up and release small molecules by changing the environmental properties, or capture and protect their cargo from the surrounding conditions. These outstanding properties make them promising candidates for use in biomedical applications as delivery or carrier systems. In this study, hollow anionic p(N-isopropylacrylamid-e-co-itaconic acid) microgels are synthesized and analyzed regarding their size, charge, and charge distribution. Furthermore, interactions between these microgels and the model protein cytochrome c are investigated as a function of pH. In this system, pH serves as a switch for the electrostatic interactions to alternate between no interaction, attraction, and repulsion. UV-vis spectroscopy is used to quantitatively study the encapsulation of cytochrome c and possible leakage. Additionally, fluorescence-lifetime images unravel the spatial distribution of the protein within the hollow microgels as a function of pH. These analyses show that cytochrome c mainly remains entrapped in the microgel, with pH controlling the localization of the protein - either in the microgel's cavity or in its network. This significantly differentiates these hollow microgels from microgels with similar chemical composition but without a solvent filled cavity.
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Affiliation(s)
- Sarah K Wypysek
- Institute of Physical Chemistry, RWTH Aachen University, 52056, Aachen, Germany
| | - Silvia P Centeno
- DWI Leibniz Institute for Interactive Materials, 52074, Aachen, Germany
| | - Till Gronemann
- Institute of Physical Chemistry, RWTH Aachen University, 52056, Aachen, Germany
| | - Dominik Wöll
- Institute of Physical Chemistry, RWTH Aachen University, 52056, Aachen, Germany
| | - Walter Richtering
- Institute of Physical Chemistry, RWTH Aachen University, 52056, Aachen, Germany
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7
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Wilda CB, Burnstock A, Suhling K, Mattioli Della Rocca F, Henderson RK, Nedbal J. Visualising varnish removal for conservation of paintings by fluorescence lifetime imaging (FLIM). HERITAGE SCIENCE 2023; 11:127. [PMID: 37333623 PMCID: PMC10276100 DOI: 10.1186/s40494-023-00957-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Accepted: 05/17/2023] [Indexed: 06/20/2023]
Abstract
The removal of varnish from the surface is a key step in painting conservation. Varnish removal is traditionally monitored by examining the painting surface under ultraviolet illumination. We show here that by imaging the fluorescence lifetime instead, much better contrast, sensitivity, and specificity can be achieved. For this purpose, we developed a lightweight (4.8 kg) portable instrument for macroscopic fluorescence lifetime imaging (FLIM). It is based on a time-correlated single-photon avalanche diode (SPAD) camera to acquire the FLIM images and a pulsed 440 nm diode laser to excite the varnish fluorescence. A historical model painting was examined to demonstrate the capabilities of the system. We found that the FLIM images provided information on the distribution of the varnish on the painting surface with greater sensitivity, specificity, and contrast compared to the traditional ultraviolet illumination photography. The distribution of the varnish and other painting materials was assessed using FLIM during and after varnish removal with different solvent application methods. Monitoring of the varnish removal process between successive solvent applications by a swab revealed an evolving image contrast as a function of the cleaning progress. FLIM of dammar and mastic resin varnishes identified characteristic changes to their fluorescence lifetimes depending on their ageing conditions. Thus, FLIM has a potential to become a powerful and versatile tool to visualise varnish removal from paintings. Graphical Abstract
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Affiliation(s)
- Christine B. Wilda
- Department of Physics, King’s College London, Strand, London, WC2R 2LS United Kingdom
- The Courtauld, Somerset House, Strand, London, WC1X 0RN United Kingdom
- ConservArt, 6620 E Rogers Cir, Boca Raton, FL 33487 United States
| | - Aviva Burnstock
- The Courtauld, Somerset House, Strand, London, WC1X 0RN United Kingdom
| | - Klaus Suhling
- Department of Physics, King’s College London, Strand, London, WC2R 2LS United Kingdom
| | - Francesco Mattioli Della Rocca
- School of Engineering, University of Edinburgh, King’s Buildings, Edinburgh, EH9 3JL United Kingdom
- Europe Technology Development Centre, Sony Semiconductor Solutions - Sony Europe B.V., Trento, Italy
| | - Robert K. Henderson
- School of Engineering, University of Edinburgh, King’s Buildings, Edinburgh, EH9 3JL United Kingdom
| | - Jakub Nedbal
- Department of Physics, King’s College London, Strand, London, WC2R 2LS United Kingdom
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8
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Chen WW, Tang W, Hamerton EK, Kuo PX, Lemieux GA, Ashrafi K, Cicerone MT. Identifying lipid particle sub-types in live Caenorhabditis elegans with two-photon fluorescence lifetime imaging. Front Chem 2023; 11:1161775. [PMID: 37123874 PMCID: PMC10137682 DOI: 10.3389/fchem.2023.1161775] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Accepted: 04/05/2023] [Indexed: 05/02/2023] Open
Abstract
Fat metabolism is an important modifier of aging and longevity in Caenorhabditis elegans. Given the anatomy and hermaphroditic nature of C. elegans, a major challenge is to distinguish fats that serve the energetic needs of the parent from those that are allocated to the progeny. Broadband coherent anti-Stokes Raman scattering (BCARS) microscopy has revealed that the composition and dynamics of lipid particles are heterogeneous both within and between different tissues of this organism. Using BCARS, we have previously succeeded in distinguishing lipid-rich particles that serve as energetic reservoirs of the parent from those that are destined for the progeny. While BCARS microscopy produces high-resolution images with very high information content, it is not yet a widely available platform. Here we report a new approach combining the lipophilic vital dye Nile Red and two-photon fluorescence lifetime imaging microscopy (2p-FLIM) for the in vivo discrimination of lipid particle sub-types. While it is widely accepted that Nile Red staining yields unreliable results for detecting lipid structures in live C. elegans due to strong interference of autofluorescence and non-specific staining signals, our results show that simple FLIM phasor analysis can effectively separate those signals and is capable of differentiating the non-polar lipid-dominant (lipid-storage), polar lipid-dominant (yolk lipoprotein) particles, and the intermediates that have been observed using BCARS microscopy. An advantage of this approach is that images can be acquired using common, commercially available 2p-FLIM systems within about 10% of the time required to generate a BCARS image. Our work provides a novel, broadly accessible approach for analyzing lipid-containing structures in a complex, live whole organism context.
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Affiliation(s)
- Wei-Wen Chen
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, United States
| | - Wenyu Tang
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, United States
| | - Emily K. Hamerton
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, United States
| | - Penelope X. Kuo
- School of Environmental and Biological Sciences, Rutgers University, New Brunswick, NJ, United States
| | - George A. Lemieux
- School of Medicine, University of California, San Francisco, CA, United States
| | - Kaveh Ashrafi
- School of Medicine, University of California, San Francisco, CA, United States
| | - Marcus T. Cicerone
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, United States
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9
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Galiani S, Eggeling C, Reglinski K. Super-resolution microscopy and studies of peroxisomes. Biol Chem 2023; 404:87-106. [PMID: 36698322 DOI: 10.1515/hsz-2022-0314] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2022] [Accepted: 01/06/2023] [Indexed: 01/27/2023]
Abstract
Fluorescence microscopy is an important tool for studying cellular structures such as organelles. Unfortunately, many details in the corresponding images are hidden due to the resolution limit of conventional lens-based far-field microscopy. An example is the study of peroxisomes, where important processes such as molecular organization during protein important can simply not be studied with conventional far-field microscopy methods. A remedy is super-resolution fluorescence microscopy, which is nowadays a well-established technique for the investigation of inner-cellular structures but has so far to a lesser extent been applied to the study of peroxisomes. To help advancing the latter, we here give an overview over the different super-resolution microscopy approaches and their potentials and challenges in cell-biological research, including labelling issues and a focus on studies on peroxisomes. Here, we also highlight experiments beyond simple imaging such as observations of diffusion dynamics of peroxisomal proteins.
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Affiliation(s)
- Silvia Galiani
- Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford, OX3 9DS, UK
| | - Christian Eggeling
- Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, Headley Way, Oxford, OX3 9DS, UK.,Leibniz Institute of Photonic Technology e.V., Albert-Einstein Strasse 9, D-07745 Jena, Germany, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Jena, Germany.,Institute of Applied Optics and Biophysics, Friedrich Schiller University Jena, Max-Wien-Platz 1, D-07743 Jena, Germany.,Jena Center for Soft Matter, Philosophenweg 7, D-07743 Jena, Germany
| | - Katharina Reglinski
- Leibniz Institute of Photonic Technology e.V., Albert-Einstein Strasse 9, D-07745 Jena, Germany, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Jena, Germany.,Institute of Applied Optics and Biophysics, Friedrich Schiller University Jena, Max-Wien-Platz 1, D-07743 Jena, Germany.,University Clinics Jena, Bachstraße 18, D-07743 Jena, Germany
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10
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Affiliation(s)
- Jinrun Dong
- Laboratory of Experimental Physical Biology, Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
| | - Jiandong Feng
- Laboratory of Experimental Physical Biology, Department of Chemistry, Zhejiang University, Hangzhou, 310027, China
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11
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Oleksiievets N, Mathew C, Thiele JC, Gallea JI, Nevskyi O, Gregor I, Weber A, Tsukanov R, Enderlein J. Single-Molecule Fluorescence Lifetime Imaging Using Wide-Field and Confocal-Laser Scanning Microscopy: A Comparative Analysis. NANO LETTERS 2022; 22:6454-6461. [PMID: 35792810 PMCID: PMC9373986 DOI: 10.1021/acs.nanolett.2c01586] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
A recent addition to the toolbox of super-resolution microscopy methods is fluorescence-lifetime single-molecule localization microscopy (FL-SMLM). The synergy of SMLM and fluorescence-lifetime imaging microscopy (FLIM) combines superior image resolution with lifetime information and can be realized using two complementary experimental approaches: confocal-laser scanning microscopy (CLSM) or wide-field microscopy. Here, we systematically and comprehensively compare these two novel FL-SMLM approaches in different spectral regions. For wide-field FL-SMLM, we use a commercial lifetime camera, and for CLSM-based FL-SMLM we employ a home-built system equipped with a rapid scan unit and a single-photon detector. We characterize the performances of the two systems in localizing single emitters in 3D by combining FL-SMLM with metal-induced energy transfer (MIET) for localization along the third dimension and in the lifetime-based multiplexed bioimaging using DNA-PAINT. Finally, we discuss advantages and disadvantages of wide-field and confocal FL-SMLM and provide practical advice on rational FL-SMLM experiment design.
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Affiliation(s)
- Nazar Oleksiievets
- III.
Institute of Physics − Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Christeena Mathew
- Laboratory
of Supramolecular Chemistry, EPFL SB ISIC
LCS, BCH 3307, CH-1015 Lausanne, Switzerland
| | - Jan Christoph Thiele
- III.
Institute of Physics − Biophysics, Georg August University, 37077 Göttingen, Germany
| | - José Ignacio Gallea
- III.
Institute of Physics − Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Oleksii Nevskyi
- III.
Institute of Physics − Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Ingo Gregor
- III.
Institute of Physics − Biophysics, Georg August University, 37077 Göttingen, Germany
| | - André Weber
- Combinatorial
NeuroImaging Core Facility, Leibniz Institute
for Neurobiology, Brenneckestraße 6, 39118 Magdeburg, Germany
| | - Roman Tsukanov
- III.
Institute of Physics − Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Jörg Enderlein
- III.
Institute of Physics − Biophysics, Georg August University, 37077 Göttingen, Germany
- Cluster
of Excellence “Multiscale Bioimaging: from Molecular Machines
to Networks of Excitable Cells” (MBExC), Georg August University, 37077 Göttingen, Germany
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12
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Thiele JC, Jungblut M, Helmerich DA, Tsukanov R, Chizhik A, Chizhik AI, Schnermann MJ, Sauer M, Nevskyi O, Enderlein J. Isotropic three-dimensional dual-color super-resolution microscopy with metal-induced energy transfer. SCIENCE ADVANCES 2022; 8:eabo2506. [PMID: 35675401 PMCID: PMC9176750 DOI: 10.1126/sciadv.abo2506] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2022] [Accepted: 04/25/2022] [Indexed: 05/25/2023]
Abstract
Over the past two decades, super-resolution microscopy has seen a tremendous development in speed and resolution, but for most of its methods, there exists a remarkable gap between lateral and axial resolution, which is by a factor of 2 to 3 worse. One recently developed method to close this gap is metal-induced energy transfer (MIET) imaging, which achieves an axial resolution down to nanometers. It exploits the distance-dependent quenching of fluorescence when a fluorescent molecule is brought close to a metal surface. In the present manuscript, we combine the extreme axial resolution of MIET imaging with the extraordinary lateral resolution of single-molecule localization microscopy, in particular with direct stochastic optical reconstruction microscopy (dSTORM). This combination allows us to achieve isotropic three-dimensional super-resolution imaging of subcellular structures. Moreover, we used spectral demixing for implementing dual-color MIET-dSTORM that allows us to image and colocalize, in three dimensions, two different cellular structures simultaneously.
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Affiliation(s)
- Jan Christoph Thiele
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Marvin Jungblut
- Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Dominic A. Helmerich
- Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Roman Tsukanov
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Anna Chizhik
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Alexey I. Chizhik
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Martin J. Schnermann
- Chemical Biology Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, MD 21702, USA
| | - Markus Sauer
- Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Am Hubland, 97074 Würzburg, Germany
| | - Oleksii Nevskyi
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
| | - Jörg Enderlein
- Third Institute of Physics–Biophysics, Georg August University, 37077 Göttingen, Germany
- Cluster of Excellence “Multiscale Bioimaging: From Molecular Machines to Networks of Excitable Cells” (MBExC), Georg August University, Göttingen, Germany
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13
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Ma Y, Macmillan A, Yang Y, Gaus K. Lifetime based axial contrast enable simple 3D-STED imaging. Methods Appl Fluoresc 2022; 10. [PMID: 35290969 DOI: 10.1088/2050-6120/ac5e10] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2022] [Accepted: 03/15/2022] [Indexed: 11/11/2022]
Abstract
Stimulated Emission Depletion (STED) microscopy increase spatial image resolution by laterally sharpening the illumination profile of the confocal microscope. However, it remains compromised in axial resolution. To improve axial STED resolution, constructive interference of the STED depletion beam must be formed surrounding the focal plane to turn off the fluorophores beyond the focal plane. For isotropic 3D-STED resolution, this axial STED interference pattern must be overlayed with the doughnut STED beam at nanometer accuracy. Such optical configurations can be challenging in alignment. In this current work, we introduced a straightforward lifetime based axial contrast in STED microscope by imaging the samples on an ITO coated glass coverslip. The STED laser generates surface plasmon resonance on the ITO surface that enhanced the metal induced energy transfer MIET effect on the ITO surface. The enhanced MIET effect established a lifetime gradient with ~20% dynamic range that extend for mor than 400 nm from the ITO surface. The axial contrast based on the lifetime gradient was directly used for 3D-STED imaging of tubulin fibers inside COS-7 cells, where the vertical displacement of single tubulin fiber was revealed. Lifetime gating could be applied to further improve lateral spatial resolution. Considering that most common implementation of STED microscopes uses pulsed lasers and timing electronics, there is no optical modification of the microscope is required in the current 3D-STED approach.
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Affiliation(s)
- Yuanqing Ma
- EMBL Australia Node in Single Molecule Science, University of New South Wales, Level 3, Lowy Research building, Sydney, New South Wales, 2052, AUSTRALIA
| | - Alex Macmillan
- University of New South Wales, Biomedical Imaging Facility, University of New South Wales, Sydney, New South Wales, 2052, AUSTRALIA
| | - Ying Yang
- University of New South Wales, School of Chemistry, Australian Centre for NanoMedicine, and ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, Sydney, New South Wales, 2052, AUSTRALIA
| | - Katharina Gaus
- EMBL Australia Node in Single Molecule Science, The University of New South Wales, Level 3, Lowy Cancer Research Building, Sydney, NSW 2052, Sydney, New South Wales, 2052, AUSTRALIA
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14
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Nasser M, Meller A. Lifetime-based analysis of binary fluorophores mixtures in the low photon count limit. iScience 2022; 25:103554. [PMID: 34977508 PMCID: PMC8689154 DOI: 10.1016/j.isci.2021.103554] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2021] [Revised: 10/18/2021] [Accepted: 11/30/2021] [Indexed: 11/28/2022] Open
Abstract
Single biomolecule sensing often requires the quantification of multiple fluorescent species. Here, we theoretically and experimentally use time-resolved fluorescence via Time Correlated Single Photon Counting (TCSPC) to accurately quantify fluorescent species with similar chromatic signatures. A modified maximum likelihood estimator is introduced to include two fluorophore species, with compensation of the instrument response function. We apply this algorithm to simulated data of a simplified two-fluorescent species model, as well as to experimental data of fluorophores' mixtures and to a model protein, doubly labeled with different fluorophores' ratio. We show that 100 to 200 photons per fluorophore, in a 10-ms timescale, are sufficient to provide an accurate estimation of the dyes' ratio on the model protein. Our results provide estimation for the desired photon integration time toward implementation of TCSPC in systems with fast occurring events, such as translocation of biomolecules through nanopores or single-molecule burst analyses experiments. Exact ratios of emission-similar dyes in binary mixtures were quantified by TCSPC MLE-based analysis with IRF compensation was implemented for two fluorescent dyes Dual dye bioconjugation on a model protein was quantified at limited photon counts
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Affiliation(s)
- Maisa Nasser
- Department of Biomedical Engineering, Technion - IIT, Haifa 32000, Israel
| | - Amit Meller
- Department of Biomedical Engineering, Technion - IIT, Haifa 32000, Israel
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15
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Orr-Ewing AJ, Crawford TD, Zanni MT, Hartland G, Shea JE. A Venue for Advances in Experimental and Theoretical Methods in Physical Chemistry. J Phys Chem A 2022; 126:177-179. [PMID: 35045707 DOI: 10.1021/acs.jpca.1c10457] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Andrew J Orr-Ewing
- School of Chemistry, University of Bristol, Cantock's Close, Bristol BS8 1TS, U.K
| | - T Daniel Crawford
- Department of Chemistry, Virginia Tech, Blacksburg, Virginia 24061, United States.,Molecular Sciences Software Institute, 1880 Pratt Drive, Suite 1100, Blacksburg, Virginia 24060, United States
| | - Martin T Zanni
- Department of Chemistry, University of Wisconsin─Madison, 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Gregory Hartland
- University of Notre Dame, Notre Dame, Indiana 46556, United States
| | - Joan-Emma Shea
- Department of Chemistry and Biochemistry, University of California, Santa Barbara, Santa Barbara, California 93106, United States.,Department of Physics, University of California, Santa Barbara, Santa Barbara, California 93106, United States
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16
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Oleksiievets N, Sargsyan Y, Thiele JC, Mougios N, Sograte-Idrissi S, Nevskyi O, Gregor I, Opazo F, Thoms S, Enderlein J, Tsukanov R. Fluorescence lifetime DNA-PAINT for multiplexed super-resolution imaging of cells. Commun Biol 2022; 5:38. [PMID: 35017652 PMCID: PMC8752799 DOI: 10.1038/s42003-021-02976-4] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Accepted: 12/08/2021] [Indexed: 11/08/2022] Open
Abstract
DNA point accumulation for imaging in nanoscale topography (DNA-PAINT) is a powerful super-resolution technique highly suitable for multi-target (multiplexing) bio-imaging. However, multiplexed imaging of cells is still challenging due to the dense and sticky environment inside a cell. Here, we combine fluorescence lifetime imaging microscopy (FLIM) with DNA-PAINT and use the lifetime information as a multiplexing parameter for targets identification. In contrast to Exchange-PAINT, fluorescence lifetime PAINT (FL-PAINT) can image multiple targets simultaneously and does not require any fluid exchange, thus leaving the sample undisturbed and making the use of flow chambers/microfluidic systems unnecessary. We demonstrate the potential of FL-PAINT by simultaneous imaging of up to three targets in a cell using both wide-field FLIM and 3D time-resolved confocal laser scanning microscopy (CLSM). FL-PAINT can be readily combined with other existing techniques of multiplexed imaging and is therefore a perfect candidate for high-throughput multi-target bio-imaging.
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Affiliation(s)
- Nazar Oleksiievets
- III. Institute of Physics - Biophysics, Georg August University, 37077, Göttingen, Germany
| | - Yelena Sargsyan
- Department of Child and Adolescent Health, University Medical Center Göttingen, 37073, Göttingen, Germany
| | - Jan Christoph Thiele
- III. Institute of Physics - Biophysics, Georg August University, 37077, Göttingen, Germany
| | - Nikolaos Mougios
- Institute of Neuro- and Sensory Physiology, University Medical Center Göttingen, 37073, Göttingen, Germany
- Center for Biostructural Imaging of Neurodegeneration (BIN), University Medical Center Göttingen, 37075, Göttingen, Germany
| | - Shama Sograte-Idrissi
- Institute of Neuro- and Sensory Physiology, University Medical Center Göttingen, 37073, Göttingen, Germany
- Center for Biostructural Imaging of Neurodegeneration (BIN), University Medical Center Göttingen, 37075, Göttingen, Germany
| | - Oleksii Nevskyi
- III. Institute of Physics - Biophysics, Georg August University, 37077, Göttingen, Germany
| | - Ingo Gregor
- III. Institute of Physics - Biophysics, Georg August University, 37077, Göttingen, Germany
| | - Felipe Opazo
- Institute of Neuro- and Sensory Physiology, University Medical Center Göttingen, 37073, Göttingen, Germany
- Center for Biostructural Imaging of Neurodegeneration (BIN), University Medical Center Göttingen, 37075, Göttingen, Germany
- NanoTag Biotechnologies GmbH, 37079, Göttingen, Germany
| | - Sven Thoms
- Department of Child and Adolescent Health, University Medical Center Göttingen, 37073, Göttingen, Germany
- Biochemistry and Molecular Medicine, Medical School, Bielefeld University, 33615, Bielefeld, Germany
| | - Jörg Enderlein
- III. Institute of Physics - Biophysics, Georg August University, 37077, Göttingen, Germany.
- Cluster of Excellence "Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells" (MBExC), Georg August University, Göttingen, Germany.
| | - Roman Tsukanov
- III. Institute of Physics - Biophysics, Georg August University, 37077, Göttingen, Germany.
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17
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Thiele JC, Nevskyi O, Helmerich DA, Sauer M, Enderlein J. Advanced Data Analysis for Fluorescence-Lifetime Single-Molecule Localization Microscopy. FRONTIERS IN BIOINFORMATICS 2021; 1:740281. [PMID: 36303750 PMCID: PMC9581058 DOI: 10.3389/fbinf.2021.740281] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2021] [Accepted: 10/04/2021] [Indexed: 11/25/2022] Open
Abstract
Fluorescence-lifetime single molecule localization microscopy (FL-SMLM) adds the lifetime dimension to the spatial super-resolution provided by SMLM. Independent of intensity and spectrum, this lifetime information can be used, for example, to quantify the energy transfer efficiency in Förster Resonance Energy Transfer (FRET) imaging, to probe the local environment with dyes that change their lifetime in an environment-sensitive manner, or to achieve image multiplexing by using dyes with different lifetimes. We present a thorough theoretical analysis of fluorescence-lifetime determination in the context of FL-SMLM and compare different lifetime-fitting approaches. In particular, we investigate the impact of background and noise, and give clear guidelines for procedures that are optimized for FL-SMLM. We do also present and discuss our public-domain software package “Fluorescence-Lifetime TrackNTrace,” which converts recorded fluorescence microscopy movies into super-resolved FL-SMLM images.
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Affiliation(s)
- Jan Christoph Thiele
- Third Institute of Physics—Biophysics, Georg August University, Göttingen, Germany
- *Correspondence: Jan Christoph Thiele, ; Jörg Enderlein,
| | - Oleksii Nevskyi
- Third Institute of Physics—Biophysics, Georg August University, Göttingen, Germany
| | - Dominic A. Helmerich
- Department of Biotechnology and Biophysics, Biocenter, Julius-Maximilians-Universität Würzburg, Würzburg, Germany
| | - Markus Sauer
- Department of Biotechnology and Biophysics, Biocenter, Julius-Maximilians-Universität Würzburg, Würzburg, Germany
| | - Jörg Enderlein
- Third Institute of Physics—Biophysics, Georg August University, Göttingen, Germany
- Cluster of Excellence “Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells” (MBExC), Georg August University, Göttingen, Germany
- *Correspondence: Jan Christoph Thiele, ; Jörg Enderlein,
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18
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Abstract
Super-resolution fluorescence microscopy and Förster Resonance Energy Transfer (FRET) form a well-established family of techniques that has provided unique tools to study the dynamic architecture and functionality of biological systems, as well as to investigate nanomaterials. In the last years, the integration of super-resolution methods with FRET measurements has generated advances in two fronts. On the one hand, FRET-based probes have enhanced super-resolution imaging. On the other, the development of super-resolved FRET imaging methods has allowed the visualization of molecular interaction patterns with higher spatial resolution, less averaging and higher dynamic range. Here, we review these advances and discuss future perspectives, including the possible integration of FRET with next generation super-resolution techniques capable of reaching true molecular-scale spatial resolution.
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Affiliation(s)
- Alan M Szalai
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Argentina.
| | - Cecilia Zaza
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Argentina.
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHA Ciudad Autónoma de Buenos Aires, Argentina
| | - Fernando D Stefani
- Centro de Investigaciones en Bionanociencias (CIBION), Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Godoy Cruz 2390, C1425FQD Ciudad Autónoma de Buenos Aires, Argentina.
- Departamento de Física, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Güiraldes 2620, C1428EHA Ciudad Autónoma de Buenos Aires, Argentina
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19
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Bowman AJ, Kasevich MA. Resonant Electro-Optic Imaging for Microscopy at Nanosecond Resolution. ACS NANO 2021; 15:16043-16054. [PMID: 34546704 DOI: 10.1021/acsnano.1c04470] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
We demonstrate an electro-optic wide-field method to enable fluorescence lifetime microscopy (FLIM) with high throughput and single-molecule sensitivity. Resonantly driven Pockels cells are used to efficiently gate images at 39 MHz, allowing fluorescence lifetime to be captured on standard camera sensors. Lifetime imaging of single molecules is enabled in wide field with exposure times of less than 100 ms. This capability allows combination of wide-field FLIM with single-molecule super-resolution localization microscopy. Fast single-molecule dynamics such as FRET and molecular binding events are captured from wide-field images without prior spatial knowledge. A lifetime sensitivity of 1.9 times the photon shot-noise limit is achieved, and high throughput is shown by acquiring wide-field FLIM images with millisecond exposure and >108 photons per frame. Resonant electro-optic FLIM allows lifetime contrast in any wide-field microscopy method.
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Affiliation(s)
- Adam J Bowman
- Physics Department, Stanford University, 382 Via Pueblo Mall, Stanford, California 94305, United States
| | - Mark A Kasevich
- Physics Department, Stanford University, 382 Via Pueblo Mall, Stanford, California 94305, United States
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20
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Liao J, Zhou J, Song Y, Liu B, Chen Y, Wang F, Chen C, Lin J, Chen X, Lu J, Jin D. Preselectable Optical Fingerprints of Heterogeneous Upconversion Nanoparticles. NANO LETTERS 2021; 21:7659-7668. [PMID: 34406016 DOI: 10.1021/acs.nanolett.1c02404] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
The control in optical uniformity of single nanoparticles and tuning their diversity in multiple dimensions, dot to dot, holds the key to unlocking nanoscale applications. Here we report that the entire lifetime profile of the single upconversion nanoparticle (τ2 profile) can be resolved by confocal, wide-field, and super-resolution microscopy techniques. The advances in both spatial and temporal resolutions push the limit of optical multiplexing from microscale to nanoscale. We further demonstrate that the time-domain optical fingerprints can be created by utilizing nanophotonic upconversion schemes, including interfacial energy migration, concentration dependency, energy transfer, and isolation of surface quenchers. We exemplify that three multiple dimensions, including the excitation wavelength, emission color, and τ2 profile, can be built into the nanoscale derivative τ2-dots. Creating a vast library of individually preselectable nanotags opens up a new horizon for diverse applications, spanning from sub-diffraction-limit data storage to high-throughput single-molecule digital assays and super-resolution imaging.
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Affiliation(s)
- Jiayan Liao
- Institute for Biomedical Materials and Devices (IBMD), Faculty of Science, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Jiajia Zhou
- Institute for Biomedical Materials and Devices (IBMD), Faculty of Science, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Yiliao Song
- Centre for Artificial Intelligence, Faculty of Engineering and IT, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Baolei Liu
- Institute for Biomedical Materials and Devices (IBMD), Faculty of Science, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Yinghui Chen
- Institute for Biomedical Materials and Devices (IBMD), Faculty of Science, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Fan Wang
- Institute for Biomedical Materials and Devices (IBMD), Faculty of Science, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Chaohao Chen
- Institute for Biomedical Materials and Devices (IBMD), Faculty of Science, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Jun Lin
- State Key Laboratory of Rare Earth Resource Utilization, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, People's Republic of China
| | - Xueyuan Chen
- CAS Key Laboratory of Design and Assembly of Functional Nanostructures and Fujian Key Laboratory of Nanomaterials, Fujian Institute of Research on the Structure of Matter, Chinese Academy of Sciences, Fuzhou, Fujian 350002, People's Republic of China
| | - Jie Lu
- Centre for Artificial Intelligence, Faculty of Engineering and IT, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Dayong Jin
- Institute for Biomedical Materials and Devices (IBMD), Faculty of Science, University of Technology Sydney, Sydney, New South Wales 2007, Australia
- UTS-SUStech Joint Research Centre for Biomedical Materials & Devices, Department of Biomedical Engineering, Southern University of Science and Technology, Shenzhen, People's Republic of China
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21
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Xiang L, Chen K, Xu K. Single Molecules Are Your Quanta: A Bottom-Up Approach toward Multidimensional Super-resolution Microscopy. ACS NANO 2021; 15:12483-12496. [PMID: 34304562 PMCID: PMC8789943 DOI: 10.1021/acsnano.1c04708] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/09/2023]
Abstract
The rise of single-molecule localization microscopy (SMLM) and related super-resolution methods over the past 15 years has revolutionized how we study biological and materials systems. In this Perspective, we reflect on the underlying philosophy of how diffraction-unlimited pictures containing rich spatial and functional information may gradually emerge through the local accumulation of single-molecule measurements. Starting with the basic concepts, we analyze the uniqueness of and opportunities in building up the final picture one molecule at a time. After brief introductions to the more established multicolor and three-dimensional measurements, we highlight emerging efforts to extend SMLM to new dimensions and functionalities as fluorescence polarization, emission spectra, and molecular motions, and discuss rising opportunities and future directions. With single molecules as our quanta, the bottom-up accumulation approach provides a powerful conduit for multidimensional microscopy at the nanoscale.
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22
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Ghosh A, Chizhik AI, Karedla N, Enderlein J. Graphene- and metal-induced energy transfer for single-molecule imaging and live-cell nanoscopy with (sub)-nanometer axial resolution. Nat Protoc 2021; 16:3695-3715. [PMID: 34099942 DOI: 10.1038/s41596-021-00558-6] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2020] [Accepted: 04/19/2021] [Indexed: 02/05/2023]
Abstract
Super-resolution fluorescence imaging that surpasses the classical optical resolution limit is widely utilized for resolving the spatial organization of biological structures at molecular length scales. In one example, single-molecule localization microscopy, the lateral positions of single molecules can be determined more precisely than the diffraction limit if the camera collects individual photons separately. Using several schemes that introduce engineered optical aberrations in the imaging optics, super-resolution along the optical axis (perpendicular to the sample plane) has been achieved, and single-molecule localization microscopy has been successfully applied for the study of 3D biological structures. Nonetheless, the achievable axial localization accuracy is typically three to five times worse than the lateral localization accuracy. Only a few exceptional methods based on interferometry exist that reach nanometer 3D super-resolution, but they involve enormous technical complexity and restricted sample preparations that inhibit their widespread application. We developed metal-induced energy transfer imaging for localizing fluorophores along the axial direction with nanometer accuracy, using only a conventional fluorescence lifetime imaging microscope. In metal-induced energy transfer, experimentally measured fluorescence lifetime values increase linearly with axial distance in the range of 0-100 nm, making it possible to calculate their axial position using a theoretical model. If graphene is used instead of the metal (graphene-induced energy transfer), the same range of lifetime values occurs over a shorter axial distance (~25 nm), meaning that it is possible to get very accurate axial information at the scale of a membrane bilayer or a molecular complex in a membrane. Here, we provide a step-by-step protocol for metal- and graphene-induced energy transfer imaging in single molecules, supported lipid bilayer and live-cell membranes. Depending on the sample preparation time, the complete duration of the protocol is 1-3 d.
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Affiliation(s)
- Arindam Ghosh
- Third Institute of Physics-Biophysics, Georg August University, Göttingen, Germany
| | - Alexey I Chizhik
- Third Institute of Physics-Biophysics, Georg August University, Göttingen, Germany
| | - Narain Karedla
- Rosalind Franklin Institute, Didcot, UK.,Kennedy Institute for Rheumatology, University of Oxford, Oxford, UK
| | - Jörg Enderlein
- Third Institute of Physics-Biophysics, Georg August University, Göttingen, Germany. .,Cluster of Excellence 'Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells' (MBExC), Georg August University, Göttingen, Germany.
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23
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Datta R, Gillette A, Stefely M, Skala MC. Recent innovations in fluorescence lifetime imaging microscopy for biology and medicine. JOURNAL OF BIOMEDICAL OPTICS 2021; 26:JBO-210093-PER. [PMID: 34247457 PMCID: PMC8271181 DOI: 10.1117/1.jbo.26.7.070603] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2021] [Accepted: 06/11/2021] [Indexed: 05/05/2023]
Abstract
SIGNIFICANCE Fluorescence lifetime imaging microscopy (FLIM) measures the decay rate of fluorophores, thus providing insights into molecular interactions. FLIM is a powerful molecular imaging technique that is widely used in biology and medicine. AIM This perspective highlights some of the major advances in FLIM instrumentation, analysis, and biological and clinical applications that we have found impactful over the last year. APPROACH Innovations in FLIM instrumentation resulted in faster acquisition speeds, rapid imaging over large fields of view, and integration with complementary modalities such as single-molecule microscopy or light-sheet microscopy. There were significant developments in FLIM analysis with machine learning approaches to enhance processing speeds, fit-free techniques to analyze images without a priori knowledge, and open-source analysis resources. The advantages and limitations of these recent instrumentation and analysis techniques are summarized. Finally, applications of FLIM in the last year include label-free imaging in biology, ophthalmology, and intraoperative imaging, FLIM of new fluorescent probes, and lifetime-based Förster resonance energy transfer measurements. CONCLUSIONS A large number of high-quality publications over the last year signifies the growing interest in FLIM and ensures continued technological improvements and expanding applications in biomedical research.
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Affiliation(s)
- Rupsa Datta
- Morgridge Institute for Research, Madison, Wisconsin, United States
| | - Amani Gillette
- Morgridge Institute for Research, Madison, Wisconsin, United States
- University of Wisconsin, Department of Biomedical Engineering, Madison, Wisconsin, United States
| | - Matthew Stefely
- Morgridge Institute for Research, Madison, Wisconsin, United States
| | - Melissa C. Skala
- Morgridge Institute for Research, Madison, Wisconsin, United States
- University of Wisconsin, Department of Biomedical Engineering, Madison, Wisconsin, United States
- Address all correspondence to Melissa C. Skala,
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24
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Dasgupta A, Deschamps J, Matti U, Hübner U, Becker J, Strauss S, Jungmann R, Heintzmann R, Ries J. Direct supercritical angle localization microscopy for nanometer 3D superresolution. Nat Commun 2021; 12:1180. [PMID: 33608524 PMCID: PMC7896076 DOI: 10.1038/s41467-021-21333-x] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2020] [Accepted: 01/20/2021] [Indexed: 12/26/2022] Open
Abstract
3D single molecule localization microscopy (SMLM) is an emerging superresolution method for structural cell biology, as it allows probing precise positions of proteins in cellular structures. In supercritical angle localization microscopy (SALM), z-positions of single fluorophores are extracted from the intensity of supercritical angle fluorescence, which strongly depends on their distance to the coverslip. Here, we realize the full potential of SALM and improve its z-resolution by more than four-fold compared to the state-of-the-art by directly splitting supercritical and undercritical emission, using an ultra-high NA objective, and applying fitting routines to extract precise intensities of single emitters. We demonstrate nanometer isotropic localization precision on DNA origami structures, and on clathrin coated vesicles and microtubules in cells, illustrating the potential of SALM for cell biology. Supercritical angle localisation microscopy (SALM) allows the z-positions of single fluorophores to be extracted from the intensity of supercritical angle fluorescence. Here the authors improve the z-resolution of SALM, and report nanometre isotropic localisation precision on DNA origami structures.
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Affiliation(s)
- Anindita Dasgupta
- Cell Biology and Biophysics, European Molecular Biology Laboratory, Heidelberg, Germany.,Institute of Applied Optics and Biophysics, Friedrich-Schiller-University, Jena, Germany.,Leibniz Institute of Photonic Technology, Jena, Germany
| | - Joran Deschamps
- Cell Biology and Biophysics, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Ulf Matti
- Cell Biology and Biophysics, European Molecular Biology Laboratory, Heidelberg, Germany
| | - Uwe Hübner
- Leibniz Institute of Photonic Technology, Jena, Germany
| | - Jan Becker
- Leibniz Institute of Photonic Technology, Jena, Germany
| | - Sebastian Strauss
- Faculty of Physics and Center for Nanoscience, Ludwig Maximilian University, Munich, Germany.,Max Planck Institute of Biochemistry, Martinsried, Germany
| | - Ralf Jungmann
- Faculty of Physics and Center for Nanoscience, Ludwig Maximilian University, Munich, Germany.,Max Planck Institute of Biochemistry, Martinsried, Germany
| | - Rainer Heintzmann
- Leibniz Institute of Photonic Technology, Jena, Germany.,Institute of Physical Chemistry, Friedrich-Schiller-University, Jena, Germany.,Abbe Center of Photonics, Friedrich-Schiller-University, Jena, Germany
| | - Jonas Ries
- Cell Biology and Biophysics, European Molecular Biology Laboratory, Heidelberg, Germany.
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25
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Hofemeier AD, Limon T, Muenker TM, Wallmeyer B, Jurado A, Afshar ME, Ebrahimi M, Tsukanov R, Oleksiievets N, Enderlein J, Gilbert PM, Betz T. Global and local tension measurements in biomimetic skeletal muscle tissues reveals early mechanical homeostasis. eLife 2021; 10:60145. [PMID: 33459593 PMCID: PMC7906603 DOI: 10.7554/elife.60145] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2020] [Accepted: 01/17/2021] [Indexed: 12/15/2022] Open
Abstract
Tension and mechanical properties of muscle tissue are tightly related to proper skeletal muscle function, which makes experimental access to the biomechanics of muscle tissue formation a key requirement to advance our understanding of muscle function and development. Recently developed elastic in vitro culture chambers allow for raising 3D muscle tissue under controlled conditions and to measure global tissue force generation. However, these chambers are inherently incompatible with high-resolution microscopy limiting their usability to global force measurements, and preventing the exploitation of modern fluorescence based investigation methods for live and dynamic measurements. Here, we present a new chamber design pairing global force measurements, quantified from post-deflection, with local tension measurements obtained from elastic hydrogel beads embedded in muscle tissue. High-resolution 3D video microscopy of engineered muscle formation, enabled by the new chamber, shows an early mechanical tissue homeostasis that remains stable in spite of continued myotube maturation.
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Affiliation(s)
- Arne D Hofemeier
- Institute for Cell Biology, University of Münster, Münster, Germany
| | - Tamara Limon
- Institute for Cell Biology, University of Münster, Münster, Germany
| | | | | | - Alejandro Jurado
- Institute for Cell Biology, University of Münster, Münster, Germany
| | - Mohammad Ebrahim Afshar
- Institute of Biomedical Engineering, University of Toronto, Toronto, Canada.,Donnelly Centre, University of Toronto, Toronto, Canada
| | - Majid Ebrahimi
- Institute of Biomedical Engineering, University of Toronto, Toronto, Canada.,Donnelly Centre, University of Toronto, Toronto, Canada
| | - Roman Tsukanov
- 3rd Institute of Physics-Biophysics, University of Göttingen, Göttingen, Germany
| | - Nazar Oleksiievets
- 3rd Institute of Physics-Biophysics, University of Göttingen, Göttingen, Germany
| | - Jörg Enderlein
- 3rd Institute of Physics-Biophysics, University of Göttingen, Göttingen, Germany.,Cluster of Excellence "Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells" (MBExC), University of Göttingen, Göttingen, Germany
| | - Penney M Gilbert
- Institute of Biomedical Engineering, University of Toronto, Toronto, Canada.,Donnelly Centre, University of Toronto, Toronto, Canada.,Department of Cell and Systems Biology, University of Toronto, Toronto, Canada
| | - Timo Betz
- Institute for Cell Biology, University of Münster, Münster, Germany.,3rd Institute of Physics-Biophysics, University of Göttingen, Göttingen, Germany.,Cluster of Excellence "Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells" (MBExC), University of Göttingen, Göttingen, Germany
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26
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Thiele JC, Helmerich DA, Oleksiievets N, Tsukanov R, Butkevich E, Sauer M, Nevskyi O, Enderlein J. Confocal Fluorescence-Lifetime Single-Molecule Localization Microscopy. ACS NANO 2020; 14:14190-14200. [PMID: 33035050 DOI: 10.1021/acsnano.0c07322] [Citation(s) in RCA: 41] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Fluorescence lifetime imaging microscopy is an important technique that adds another dimension to intensity and color acquired by conventional microscopy. In particular, it allows for multiplexing fluorescent labels that have otherwise similar spectral properties. Currently, the only super-resolution technique that is capable of recording super-resolved images with lifetime information is stimulated emission depletion microscopy. In contrast, all single-molecule localization microscopy (SMLM) techniques that employ wide-field cameras completely lack the lifetime dimension. Here, we combine fluorescence-lifetime confocal laser-scanning microscopy with SMLM for realizing single-molecule localization-based fluorescence-lifetime super-resolution imaging. Besides yielding images with a spatial resolution much beyond the diffraction limit, it determines the fluorescence lifetime of all localized molecules. We validate our technique by applying it to direct stochastic optical reconstruction microscopy and points accumulation for imaging in nanoscale topography imaging of fixed cells, and we demonstrate its multiplexing capability on samples with two different labels that differ only by fluorescence lifetime but not by their spectral properties.
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Affiliation(s)
- Jan Christoph Thiele
- III. Institute of Physics-Biophysics, Georg August University, Göttingen 37077, Germany
| | - Dominic A Helmerich
- Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Am Hubland, Würzburg 97074, Germany
| | - Nazar Oleksiievets
- III. Institute of Physics-Biophysics, Georg August University, Göttingen 37077, Germany
| | - Roman Tsukanov
- III. Institute of Physics-Biophysics, Georg August University, Göttingen 37077, Germany
| | - Eugenia Butkevich
- III. Institute of Physics-Biophysics, Georg August University, Göttingen 37077, Germany
| | - Markus Sauer
- Department of Biotechnology and Biophysics, Biocenter, University of Würzburg, Am Hubland, Würzburg 97074, Germany
| | - Oleksii Nevskyi
- III. Institute of Physics-Biophysics, Georg August University, Göttingen 37077, Germany
| | - Jörg Enderlein
- III. Institute of Physics-Biophysics, Georg August University, Göttingen 37077, Germany
- Cluster of Excellence "Multiscale Bioimaging: from Molecular Machines to Networks of Excitable Cells" (MBExC), Georg August University, Göttingen 37077, Germany
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27
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Huang L, Wong C, Grumstrup E. Time-Resolved Microscopy: A New Frontier in Physical Chemistry. J Phys Chem A 2020; 124:5997-5998. [PMID: 32698589 DOI: 10.1021/acs.jpca.0c05511] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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