1
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Barroso M, Monaghan MG, Niesner R, Dmitriev RI. Probing organoid metabolism using fluorescence lifetime imaging microscopy (FLIM): The next frontier of drug discovery and disease understanding. Adv Drug Deliv Rev 2023; 201:115081. [PMID: 37647987 PMCID: PMC10543546 DOI: 10.1016/j.addr.2023.115081] [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: 02/24/2023] [Revised: 04/20/2023] [Accepted: 08/24/2023] [Indexed: 09/01/2023]
Abstract
Organoid models have been used to address important questions in developmental and cancer biology, tissue repair, advanced modelling of disease and therapies, among other bioengineering applications. Such 3D microenvironmental models can investigate the regulation of cell metabolism, and provide key insights into the mechanisms at the basis of cell growth, differentiation, communication, interactions with the environment and cell death. Their accessibility and complexity, based on 3D spatial and temporal heterogeneity, make organoids suitable for the application of novel, dynamic imaging microscopy methods, such as fluorescence lifetime imaging microscopy (FLIM) and related decay time-assessing readouts. Several biomarkers and assays have been proposed to study cell metabolism by FLIM in various organoid models. Herein, we present an expert-opinion discussion on the principles of FLIM and PLIM, instrumentation and data collection and analysis protocols, and general and emerging biosensor-based approaches, to highlight the pioneering work being performed in this field.
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Affiliation(s)
- Margarida Barroso
- Department of Molecular and Cellular Physiology, Albany Medical College, Albany, NY 12208, USA
| | - Michael G Monaghan
- Department of Mechanical, Manufacturing and Biomedical Engineering, Trinity College Dublin, Dublin 02, Ireland
| | - Raluca Niesner
- Dynamic and Functional In Vivo Imaging, Freie Universität Berlin and Biophysical Analytics, German Rheumatism Research Center, Berlin, Germany
| | - Ruslan I Dmitriev
- Tissue Engineering and Biomaterials Group, Department of Human Structure and Repair, Faculty of Medicine and Health Sciences, Ghent University, C. Heymanslaan 10, 9000 Ghent, Belgium; Ghent Light Microscopy Core, Ghent University, 9000 Ghent, Belgium.
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2
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Three Dimensional Lifetime-Multiplex Tomography Based on Time-Gated Capturing of Near-Infrared Fluorescence Images. APPLIED SCIENCES-BASEL 2022. [DOI: 10.3390/app12157721] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
Abstract
We report a computed tomography (CT) technique for mapping near-infrared fluorescence (NIRF) lifetime as a multiplex three-dimensional (3D) imaging method, using a conventional NIR camera. This method is achieved by using a time-gated system composed of a pulsed laser and an NIR camera synchronized with a rotatable sample stage for NIRF-CT imaging. The fluorescence lifetimes in microsecond-order of lanthanides were mapped on reconstructed cross-sectional and 3D images, via back-projection of two-dimensional projected images acquired from multiple angles at each time point showing fluorescence decay. A method to select slopes (the observed decay rates in time-gated imaging) used for the lifetime calculation, termed as the slope comparison method, was developed for the accurate calculation of each pixel, resulting in reduction of image acquisition time. Time-gated NIRF-CT provides a novel choice for multiplex 3D observation of deep tissues in biology.
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3
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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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4
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Dmitriev RI, Intes X, Barroso MM. Luminescence lifetime imaging of three-dimensional biological objects. J Cell Sci 2021; 134:1-17. [PMID: 33961054 PMCID: PMC8126452 DOI: 10.1242/jcs.254763] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
A major focus of current biological studies is to fill the knowledge gaps between cell, tissue and organism scales. To this end, a wide array of contemporary optical analytical tools enable multiparameter quantitative imaging of live and fixed cells, three-dimensional (3D) systems, tissues, organs and organisms in the context of their complex spatiotemporal biological and molecular features. In particular, the modalities of luminescence lifetime imaging, comprising fluorescence lifetime imaging (FLI) and phosphorescence lifetime imaging microscopy (PLIM), in synergy with Förster resonance energy transfer (FRET) assays, provide a wealth of information. On the application side, the luminescence lifetime of endogenous molecules inside cells and tissues, overexpressed fluorescent protein fusion biosensor constructs or probes delivered externally provide molecular insights at multiple scales into protein-protein interaction networks, cellular metabolism, dynamics of molecular oxygen and hypoxia, physiologically important ions, and other physical and physiological parameters. Luminescence lifetime imaging offers a unique window into the physiological and structural environment of cells and tissues, enabling a new level of functional and molecular analysis in addition to providing 3D spatially resolved and longitudinal measurements that can range from microscopic to macroscopic scale. We provide an overview of luminescence lifetime imaging and summarize key biological applications from cells and tissues to organisms.
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Affiliation(s)
- Ruslan I. Dmitriev
- Tissue Engineering and Biomaterials Group, Department of
Human Structure and Repair, Faculty of Medicine and Health Sciences,
Ghent University, Ghent 9000,
Belgium
| | - Xavier Intes
- Department of Biomedical Engineering, Center for
Modeling, Simulation and Imaging for Medicine (CeMSIM),
Rensselaer Polytechnic Institute, Troy, NY
12180-3590, USA
| | - Margarida M. Barroso
- Department of Molecular and Cellular
Physiology, Albany Medical College,
Albany, NY 12208, USA
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5
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Li R, Liu A, Wu T, Xiao W, Tang LI, Chen L. Digital scanned laser light-sheet fluorescence lifetime microscopy with wide-field time-gated imaging. J Microsc 2020; 279:69-76. [PMID: 32307699 DOI: 10.1111/jmi.12898] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2020] [Revised: 03/21/2020] [Accepted: 04/14/2020] [Indexed: 01/01/2023]
Abstract
We develop a multidimensional fluorescence imaging technique by implementing a wide-field time-gated fluorescence lifetime imaging into digital scanned laser light-sheet microscopy (FLIM-DSLM) to measure 3D fluorescence lifetime distribution in mesoscopic specimens with high resolution. This is achieved by acquiring a series of time-gated images at different relative time delays with respect of excitation pulses at different depths. The lifetime is determined for each voxel by iteratively fitting to single exponential decay. The performance of the developed system is evaluated with the measurements of a lifetime reference Rhodamine 6G solution and a subresolution fluorescent bead phantom. We also demonstrate the application performances of this system to ex vivo and in vivo imaging of Tg(kdrl:EGFP) transgenic zebrafish embryos, illustrating the lifetime differences between the GFP signal and the autofluorescence signal. The results show that FLIM-DSLM can be used for sample size up to a few millimetres and can be utilised as a powerful and robust method for biomedical research, for example as a readout of protein-protein interactions via Förster resonance energy transfer.
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Affiliation(s)
- R Li
- College of Health Science and Environmental Engineering, Shenzhen Technology University, Shenzhen, China.,College of Optoelectronics Engineering, Shenzhen University, Shenzhen, China
| | - A Liu
- College of Health Science and Environmental Engineering, Shenzhen Technology University, Shenzhen, China.,College of Optoelectronics Engineering, Shenzhen University, Shenzhen, China
| | - T Wu
- College of Health Science and Environmental Engineering, Shenzhen Technology University, Shenzhen, China.,College of Optoelectronics Engineering, Shenzhen University, Shenzhen, China
| | - W Xiao
- College of Health Science and Environmental Engineering, Shenzhen Technology University, Shenzhen, China.,College of Optoelectronics Engineering, Shenzhen University, Shenzhen, China
| | - L I Tang
- College of Health Science and Environmental Engineering, Shenzhen Technology University, Shenzhen, China.,College of Optoelectronics Engineering, Shenzhen University, Shenzhen, China
| | - Lingling Chen
- College of Health Science and Environmental Engineering, Shenzhen Technology University, Shenzhen, China.,College of Optoelectronics Engineering, Shenzhen University, Shenzhen, China
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6
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Datta R, Heaster TM, Sharick JT, Gillette AA, Skala MC. Fluorescence lifetime imaging microscopy: fundamentals and advances in instrumentation, analysis, and applications. JOURNAL OF BIOMEDICAL OPTICS 2020; 25:1-43. [PMID: 32406215 PMCID: PMC7219965 DOI: 10.1117/1.jbo.25.7.071203] [Citation(s) in RCA: 292] [Impact Index Per Article: 73.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2020] [Accepted: 04/24/2020] [Indexed: 05/18/2023]
Abstract
SIGNIFICANCE Fluorescence lifetime imaging microscopy (FLIM) is a powerful technique to distinguish the unique molecular environment of fluorophores. FLIM measures the time a fluorophore remains in an excited state before emitting a photon, and detects molecular variations of fluorophores that are not apparent with spectral techniques alone. FLIM is sensitive to multiple biomedical processes including disease progression and drug efficacy. AIM We provide an overview of FLIM principles, instrumentation, and analysis while highlighting the latest developments and biological applications. APPROACH This review covers FLIM principles and theory, including advantages over intensity-based fluorescence measurements. Fundamentals of FLIM instrumentation in time- and frequency-domains are summarized, along with recent developments. Image segmentation and analysis strategies that quantify spatial and molecular features of cellular heterogeneity are reviewed. Finally, representative applications are provided including high-resolution FLIM of cell- and organelle-level molecular changes, use of exogenous and endogenous fluorophores, and imaging protein-protein interactions with Förster resonance energy transfer (FRET). Advantages and limitations of FLIM are also discussed. CONCLUSIONS FLIM is advantageous for probing molecular environments of fluorophores to inform on fluorophore behavior that cannot be elucidated with intensity measurements alone. Development of FLIM technologies, analysis, and applications will further advance biological research and clinical assessments.
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Affiliation(s)
- Rupsa Datta
- Morgridge Institute for Research, Madison, Wisconsin, United States
| | - Tiffany M. Heaster
- Morgridge Institute for Research, Madison, Wisconsin, United States
- University of Wisconsin, Department of Biomedical Engineering, Madison, Wisconsin, United States
| | - Joe T. Sharick
- Morgridge Institute for Research, Madison, Wisconsin, United States
| | - Amani A. Gillette
- Morgridge Institute for Research, Madison, Wisconsin, United States
- University of Wisconsin, Department of Biomedical Engineering, 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
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7
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Poudel C, Mela I, Kaminski CF. High-throughput, multi-parametric, and correlative fluorescence lifetime imaging. Methods Appl Fluoresc 2020; 8:024005. [PMID: 32028271 PMCID: PMC8208541 DOI: 10.1088/2050-6120/ab7364] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2019] [Revised: 12/18/2019] [Accepted: 02/06/2020] [Indexed: 12/11/2022]
Abstract
In this review, we discuss methods and advancements in fluorescence lifetime imaging microscopy that permit measurements to be performed at faster speed and higher resolution than previously possible. We review fast single-photon timing technologies and the use of parallelized detection schemes to enable high-throughput and high content imaging applications. We appraise different technological implementations of fluorescence lifetime imaging, primarily in the time-domain. We also review combinations of fluorescence lifetime with other imaging modalities to capture multi-dimensional and correlative information from a single sample. Throughout the review, we focus on applications in biomedical research. We conclude with a critical outlook on current challenges and future opportunities in this rapidly developing field.
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Affiliation(s)
- Chetan Poudel
- Department of Chemical Engineering and Biotechnology,
Philippa Fawcett Drive, University of
Cambridge, Cambridge CB3 0AS, United
Kingdom
| | - Ioanna Mela
- Department of Chemical Engineering and Biotechnology,
Philippa Fawcett Drive, University of
Cambridge, Cambridge CB3 0AS, United
Kingdom
| | - Clemens F Kaminski
- Department of Chemical Engineering and Biotechnology,
Philippa Fawcett Drive, University of
Cambridge, Cambridge CB3 0AS, United
Kingdom
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8
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Hirvonen LM, Nedbal J, Almutairi N, Phillips TA, Becker W, Conneely T, Milnes J, Cox S, Stürzenbaum S, Suhling K. Lightsheet fluorescence lifetime imaging microscopy with wide-field time-correlated single photon counting. JOURNAL OF BIOPHOTONICS 2020; 13:e201960099. [PMID: 31661595 PMCID: PMC7065631 DOI: 10.1002/jbio.201960099] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2019] [Revised: 10/21/2019] [Accepted: 10/24/2019] [Indexed: 05/22/2023]
Abstract
We report on wide-field time-correlated single photon counting (TCSPC)-based fluorescence lifetime imaging microscopy (FLIM) with lightsheet illumination. A pulsed diode laser is used for excitation, and a crossed delay line anode image intensifier, effectively a single-photon sensitive camera, is used to record the position and arrival time of the photons with picosecond time resolution, combining low illumination intensity of microwatts with wide-field data collection. We pair this detector with the lightsheet illumination technique, and apply it to 3D FLIM imaging of dye gradients in human cancer cell spheroids, and C. elegans.
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Affiliation(s)
- Liisa M. Hirvonen
- Randall Centre for Cell and Molecular BiophysicsKing's College LondonLondonUK
| | - Jakub Nedbal
- Department of PhysicsKing's College LondonLondonUK
| | - Norah Almutairi
- School of Population Health & Environmental Sciences, Faculty of Life Sciences & MedicineKing's College LondonLondonUK
| | - Thomas A. Phillips
- Randall Centre for Cell and Molecular BiophysicsKing's College LondonLondonUK
| | | | | | | | - Susan Cox
- Randall Centre for Cell and Molecular BiophysicsKing's College LondonLondonUK
| | - Stephen Stürzenbaum
- School of Population Health & Environmental Sciences, Faculty of Life Sciences & MedicineKing's College LondonLondonUK
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9
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Okkelman IA, Papkovsky DB, Dmitriev RI. Estimation of the Mitochondrial Membrane Potential Using Fluorescence Lifetime Imaging Microscopy. Cytometry A 2019; 97:471-482. [PMID: 31486581 DOI: 10.1002/cyto.a.23886] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2019] [Revised: 07/11/2019] [Accepted: 08/19/2019] [Indexed: 12/19/2022]
Abstract
Monitoring of cell metabolism represents an important application area for fluorescence lifetime imaging microscopy (FLIM). In particular, assessment of mitochondrial membrane potential (MMP) in complex three-dimensional multicellular in vitro, ex vivo, and in vivo models would enable improved segmentation and functional discrimination of cell types, directly report on the mitochondrial function and complement the quenched-phosphorescence detection of cellular O2 and two-photon excited FLIM of endogenous NAD(P)H. Here, we report the green and orange-emitting fluorescent dyes SYTO and tetramethylrhodamine methyl ester (TMRM) as potential FLIM probes for MMP. In addition to nuclear, SYTO 16 and 24 dyes also display mitochondrial accumulation. FLIM with the culture of human colon cancer HCT116 cells allowed observation of the heterogeneity of mitochondrial polarization during the cell cycle progression. The dyes also demonstrated good performance with 3D cultures of Lgr5-GFP mouse intestinal organoids, providing efficient and quick cell staining and compatibility with two-photon excitation. Multiplexed imaging of Lgr5-GFP, proliferating cells (Hoechst 33342-aided FLIM), and TMRM-FLIM allowed us to identify the population of metabolically active cells in stem cell niche. TMRM-FLIM enabled to visualize the differences in membrane potential between Lgr5-positive and other proliferating and differentiated cell types. Altogether, SYTO 24 and TMRM dyes represent promising markers for advanced FLIM-based studies of cell bioenergetics with complex 3D and in vivo models. © 2019 International Society for Advancement of Cytometry.
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Affiliation(s)
- Irina A Okkelman
- Laboratory of Biophysics and Bioanalysis, ABCRF, School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland
| | - Dmitri B Papkovsky
- Laboratory of Biophysics and Bioanalysis, ABCRF, School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland
| | - Ruslan I Dmitriev
- Laboratory of Biophysics and Bioanalysis, ABCRF, School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland.,Institute for Regenerative Medicine, I.M. Sechenov First Moscow State University, Moscow, Russian Federation
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10
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Chatterjee K, Pratiwi FW, Wu FCM, Chen P, Chen BC. Recent Progress in Light Sheet Microscopy for Biological Applications. APPLIED SPECTROSCOPY 2018; 72:1137-1169. [PMID: 29926744 DOI: 10.1177/0003702818778851] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
The introduction of light sheet fluorescence microscopy (LSFM) has overcome the challenges in conventional optical microscopy. Among the recent breakthroughs in fluorescence microscopy, LSFM had been proven to provide a high three-dimensional spatial resolution, high signal-to-noise ratio, fast imaging acquisition rate, and minuscule levels of phototoxic and photodamage effects. The aforementioned auspicious properties are crucial in the biomedical and clinical research fields, covering a broad range of applications: from the super-resolution imaging of intracellular dynamics in a single cell to the high spatiotemporal resolution imaging of developmental dynamics in an entirely large organism. In this review, we provided a systematic outline of the historical development of LSFM, detailed discussion on the variants and improvements of LSFM, and delineation on the most recent technological advancements of LSFM and its potential applications in single molecule/particle detection, single-molecule super-resolution imaging, imaging intracellular dynamics of a single cell, multicellular imaging: cell-cell and cell-matrix interactions, plant developmental biology, and brain imaging and developmental biology.
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Affiliation(s)
- Krishnendu Chatterjee
- 1 Nanoscience and Technology Program, Taiwan International Graduate Program, Academia Sinica, Taipei, Taiwan
- 2 Research Center for Applied Sciences, Academia Sinica, Taipei, Taiwan
- 3 Department of Engineering and System Science, National Tsing-Hua University, Hsinchu, Taiwan
| | - Feby Wijaya Pratiwi
- 1 Nanoscience and Technology Program, Taiwan International Graduate Program, Academia Sinica, Taipei, Taiwan
- 2 Research Center for Applied Sciences, Academia Sinica, Taipei, Taiwan
- 4 Department of Chemistry, National Taiwan University, Taipei, Taiwan
| | | | - Peilin Chen
- 2 Research Center for Applied Sciences, Academia Sinica, Taipei, Taiwan
| | - Bi-Chang Chen
- 2 Research Center for Applied Sciences, Academia Sinica, Taipei, Taiwan
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11
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Funane T, Hou SS, Zoltowska KM, van Veluw SJ, Berezovska O, Kumar ATN, Bacskai BJ. Selective plane illumination microscopy (SPIM) with time-domain fluorescence lifetime imaging microscopy (FLIM) for volumetric measurement of cleared mouse brain samples. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2018; 89:053705. [PMID: 29864842 PMCID: PMC6910582 DOI: 10.1063/1.5018846] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2017] [Accepted: 04/24/2018] [Indexed: 05/02/2023]
Abstract
We have developed an imaging technique which combines selective plane illumination microscopy with time-domain fluorescence lifetime imaging microscopy (SPIM-FLIM) for three-dimensional volumetric imaging of cleared mouse brains with micro- to mesoscopic resolution. The main features of the microscope include a wavelength-adjustable pulsed laser source (Ti:sapphire) (near-infrared) laser, a BiBO frequency-doubling photonic crystal, a liquid chamber, an electrically focus-tunable lens, a cuvette based sample holder, and an air (dry) objective lens. The performance of the system was evaluated with a lifetime reference dye and micro-bead phantom measurements. Intensity and lifetime maps of three-dimensional human embryonic kidney (HEK) cell culture samples and cleared mouse brain samples expressing green fluorescent protein (GFP) (donor only) and green and red fluorescent protein [positive Förster (fluorescence) resonance energy transfer] were acquired. The results show that the SPIM-FLIM system can be used for sample sizes ranging from single cells to whole mouse organs and can serve as a powerful tool for medical and biological research.
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Affiliation(s)
- Tsukasa Funane
- Department of Neurology, Harvard Medical School, Massachusetts General Hospital, 114 16th Street, Charlestown, Massachusetts 02129, USA
| | - Steven S Hou
- Department of Neurology, Harvard Medical School, Massachusetts General Hospital, 114 16th Street, Charlestown, Massachusetts 02129, USA
| | - Katarzyna Marta Zoltowska
- Department of Neurology, Harvard Medical School, Massachusetts General Hospital, 114 16th Street, Charlestown, Massachusetts 02129, USA
| | - Susanne J van Veluw
- Department of Neurology, Harvard Medical School, Massachusetts General Hospital, 114 16th Street, Charlestown, Massachusetts 02129, USA
| | - Oksana Berezovska
- Department of Neurology, Harvard Medical School, Massachusetts General Hospital, 114 16th Street, Charlestown, Massachusetts 02129, USA
| | - Anand T N Kumar
- Athinoula A. Martinos Center for Biomedical Imaging, Harvard Medical School, Massachusetts General Hospital, 149 13th Street, Charlestown, Massachusetts 02129, USA
| | - Brian J Bacskai
- Department of Neurology, Harvard Medical School, Massachusetts General Hospital, 114 16th Street, Charlestown, Massachusetts 02129, USA
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12
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Le Marois A, Suhling K. Quantitative Live Cell FLIM Imaging in Three Dimensions. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2018; 1035:31-48. [PMID: 29080129 DOI: 10.1007/978-3-319-67358-5_3] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
In this chapter, the concept of fluorescence lifetime and its utility in quantitative live cell imaging will be introduced, along with methods to record and analyze FLIM data. Relevant applications in 3D tissue and live cell imaging, including multiplexed FLIM detection, will also be detailed.
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Affiliation(s)
- Alix Le Marois
- Department of Physics, King's College London, Strand, London, WC2R 2LS, UK
| | - Klaus Suhling
- Department of Physics, King's College London, Strand, London, WC2R 2LS, UK.
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13
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Karampatzakis A, Sankaran J, Kandaswamy K, Rice SA, Cohen Y, Wohland T. Measurement of oxygen concentrations in bacterial biofilms using transient state monitoring by single plane illumination microscopy. Biomed Phys Eng Express 2017. [DOI: 10.1088/2057-1976/aa6db7] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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14
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csiLSFM combines light-sheet fluorescence microscopy and coherent structured illumination for a lateral resolution below 100 nm. Proc Natl Acad Sci U S A 2017; 114:4869-4874. [PMID: 28438995 DOI: 10.1073/pnas.1609278114] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Light-sheet-based fluorescence microscopy (LSFM) features optical sectioning in the excitation process. It minimizes fluorophore bleaching as well as phototoxic effects and provides a true axial resolution. The detection path resembles properties of conventional fluorescence microscopy. Structured illumination microscopy (SIM) is attractive for superresolution because of its moderate excitation intensity, high acquisition speed, and compatibility with all fluorophores. We introduce SIM to LSFM because the combination pushes the lateral resolution to the physical limit of linear SIM. The instrument requires three objective lenses and relies on methods to control two counterpropagating coherent light sheets that generate excitation patterns in the focal plane of the detection lens. SIM patterns with the finest line spacing in the far field become available along multiple orientations. Flexible control of rotation, frequency, and phase shift of the perfectly modulated light sheet are demonstrated. Images of beads prove a near-isotropic lateral resolution of sub-100 nm. Images of yeast endoplasmic reticulum show that coherent structured illumination (csi) LSFM performs with physiologically relevant specimens.
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15
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Mitchell CA, Poland SP, Seyforth J, Nedbal J, Gelot T, Huq T, Holst G, Knight RD, Ameer-Beg SM. Functional in vivo imaging using fluorescence lifetime light-sheet microscopy. OPTICS LETTERS 2017; 42:1269-1272. [PMID: 28362747 DOI: 10.1364/ol.42.001269] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
Light-sheet microscopy has become an indispensable tool for fast, low phototoxicity volumetric imaging of biological samples, predominantly providing structural or analyte concentration data in its standard format. Fluorescence lifetime imaging microscopy (FLIM) provides functional contrast, but often at limited acquisition speeds and with complex implementation. Therefore, we incorporate a dedicated frequency domain CMOS FLIM camera and intensity-modulated laser into a light-sheet setup to add fluorescence lifetime imaging functionality, allowing the rapid acquisition of volumetric data with concentration independent contrast. We then apply the system to image live transgenic zebrafish, demonstrating the capacity to rapidly collect volumetric FLIM data from an in vivo sample.
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16
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Rieckher M. Light Sheet Microscopy to Measure Protein Dynamics. J Cell Physiol 2016; 232:27-35. [DOI: 10.1002/jcp.25451] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2016] [Accepted: 06/07/2016] [Indexed: 12/26/2022]
Affiliation(s)
- Matthias Rieckher
- Institute for Genome Stability in Ageing and Disease; Cologne Cluster of Excellence in Cellular Stress Responses in Aging-Associated Diseases (CECAD); University of Cologne; Cologne Germany
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17
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Signor SA, Arbeitman MN, Nuzhdin SV. Gene networks and developmental context: the importance of understanding complex gene expression patterns in evolution. Evol Dev 2016; 18:201-9. [PMID: 27161950 DOI: 10.1111/ede.12187] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Animal development is the product of distinct components and interactions-genes, regulatory networks, and cells-and it exhibits emergent properties that cannot be inferred from the components in isolation. Often the focus is on the genotype-to-phenotype map, overlooking the process of development that turns one into the other. We propose a move toward micro-evolutionary analysis of development, incorporating new tools that enable cell type resolution and single-cell microscopy. Using the sex determination pathway in Drosophila to illustrate potential avenues of research, we highlight some of the questions that these emerging technologies can address. For example, they provide an unprecedented opportunity to study heterogeneity within cell populations, and the potential to add the dimension of time to gene regulatory network analysis. Challenges still remain in developing methods to analyze this data and to increase the throughput. However this line of research has the potential to bridge the gaps between previously more disparate fields, such as population genetics and development, opening up new avenues of research.
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Affiliation(s)
- Sarah A Signor
- Program in Molecular and Computation Biology, Dornsife College of Letters, Arts, and Sciences, University of Southern California, Los Angeles, CA 90089, USA
| | - Michelle N Arbeitman
- Department of Biomedical Sciences, College of Medicine, Florida State University, Tallahassee, FL 32306, USA
| | - Sergey V Nuzhdin
- Program in Molecular and Computation Biology, Dornsife College of Letters, Arts, and Sciences, University of Southern California, Los Angeles, CA 90089, USA.,Applied Mathematics, Saint Petersburg State Polytechnical University, St. Petersburg, Russia
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18
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Imaging fluorescence (cross-) correlation spectroscopy in live cells and organisms. Nat Protoc 2015; 10:1948-74. [DOI: 10.1038/nprot.2015.100] [Citation(s) in RCA: 127] [Impact Index Per Article: 14.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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19
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Lim J, Lee HK, Yu W, Ahmed S. Light sheet fluorescence microscopy (LSFM): past, present and future. Analyst 2015; 139:4758-68. [PMID: 25118817 DOI: 10.1039/c4an00624k] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Light sheet fluorescence microscopy (LSFM) has emerged as an important imaging modality to follow biology in live 3D samples over time with reduced phototoxicity and photobleaching. In particular, LSFM has been instrumental in revealing the detail of early embryonic development of Zebrafish, Drosophila, and C. elegans. Open access projects, DIY-SPIM, OpenSPIM, and OpenSPIN, now allow LSFM to be set-up easily and at low cost. The aim of this paper is to facilitate the set-up and use of LSFM by reviewing and comparing open access projects, image processing tools and future challenges.
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Affiliation(s)
- John Lim
- Institute of Medical Biology, 8A Biomedical Grove, Immunos 5.37, Singapore 138648, Singapore.
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21
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Single molecule data under scrutiny: Comment on "Extracting physics of life at the molecular level: A review of single-molecule data analyses" by W. Colomb & S.K. Sarkar. Phys Life Rev 2015; 13:138-40. [PMID: 25843015 DOI: 10.1016/j.plrev.2015.03.004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2015] [Accepted: 03/30/2015] [Indexed: 11/20/2022]
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22
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Affiliation(s)
- Ernst H K Stelzer
- Buchmann Institute for Molecular Life Sciences, Fachbereich Lebenswissenschaften (FB15, IZN), Goethe Universität Frankfurt am Main, Frankfurt am Main, Germany
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Pampaloni F, Chang BJ, Stelzer EHK. Light sheet-based fluorescence microscopy (LSFM) for the quantitative imaging of cells and tissues. Cell Tissue Res 2015; 360:129-41. [DOI: 10.1007/s00441-015-2144-5] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2014] [Accepted: 02/02/2015] [Indexed: 01/04/2023]
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24
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Hirvonen LM, Jiggins S, Sergent N, Zanda G, Suhling K. Photon counting imaging with an electron-bombarded CCD: towards a parallel-processing photoelectronic time-to-amplitude converter. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2014; 85:123102. [PMID: 25554267 DOI: 10.1063/1.4901935] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
We have used an electron-bombarded CCD for optical photon counting imaging. The photon event pulse height distribution was found to be linearly dependent on the gain voltage. We propose on this basis that a gain voltage sweep during exposure in an electron-bombarded sensor would allow photon arrival time determination with sub-frame exposure time resolution. This effectively uses an electron-bombarded sensor as a parallel-processing photoelectronic time-to-amplitude converter, or a two-dimensional photon counting streak camera. Several applications that require timing of photon arrival, including Fluorescence Lifetime Imaging Microscopy, may benefit from such an approach. A simulation of a voltage sweep performed with experimental data collected with different acceleration voltages validates the principle of this approach. Moreover, photon event centroiding was performed and a hybrid 50% Gaussian/Centre of Gravity + 50% Hyperbolic cosine centroiding algorithm was found to yield the lowest fixed pattern noise. Finally, the camera was mounted on a fluorescence microscope to image F-actin filaments stained with the fluorescent dye Alexa 488 in fixed cells.
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Affiliation(s)
- Liisa M Hirvonen
- Department of Physics, King's College London, Strand, London WC2R 2LS, United Kingdom
| | - Stephen Jiggins
- Department of Physics, King's College London, Strand, London WC2R 2LS, United Kingdom
| | - Nicolas Sergent
- Department of Physics, King's College London, Strand, London WC2R 2LS, United Kingdom
| | - Gianmarco Zanda
- Department of Physics, King's College London, Strand, London WC2R 2LS, United Kingdom
| | - Klaus Suhling
- Department of Physics, King's College London, Strand, London WC2R 2LS, United Kingdom
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Zhao M, Li Y, Peng L. Parallel excitation-emission multiplexed fluorescence lifetime confocal microscopy for live cell imaging. OPTICS EXPRESS 2014; 22:10221-32. [PMID: 24921725 PMCID: PMC4083044 DOI: 10.1364/oe.22.010221] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
We present a novel excitation-emission multiplexed fluorescence lifetime microscopy (FLIM) method that surpasses current FLIM techniques in multiplexing capability. The method employs Fourier multiplexing to simultaneously acquire confocal fluorescence lifetime images of multiple excitation wavelength and emission color combinations at 44,000 pixels/sec. The system is built with low-cost CW laser sources and standard PMTs with versatile spectral configuration, which can be implemented as an add-on to commercial confocal microscopes. The Fourier lifetime confocal method allows fast multiplexed FLIM imaging, which makes it possible to monitor multiple biological processes in live cells. The low cost and compatibility with commercial systems could also make multiplexed FLIM more accessible to biological research community.
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Affiliation(s)
- Ming Zhao
- College of Optical Sciences, the University of Arizona, 1630 E. University Blvd., Tucson, Arizona 85721, USA
| | - Yu Li
- College of Optical Sciences, the University of Arizona, 1630 E. University Blvd., Tucson, Arizona 85721, USA
| | - Leilei Peng
- College of Optical Sciences, the University of Arizona, 1630 E. University Blvd., Tucson, Arizona 85721, USA
- Molecular and Cellular Biology, University of Arizona, 1007 E. Lowell Street, Tucson, Arizona 85721, USA
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Mohan K, Mondal PP. MRT letter: Experimental verification of vectorial theory to determine field at the geometrical focus of a cylindrical lens. Microsc Res Tech 2014; 77:105-9. [PMID: 24391109 DOI: 10.1002/jemt.22332] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2013] [Revised: 12/18/2013] [Accepted: 12/18/2013] [Indexed: 11/06/2022]
Abstract
We provide experimental evidence supporting the vectorial theory for determining electric field at and near the geometrical focus of a cylindrical lens. This theory provides precise distribution of field and its polarization effects. Experimental results show a close match (≈ 95% using χ(2)-test) with the simulation results (obtained using vectorial theory). Light-sheet generated both at low and high NA cylindrical lens shows the importance of vectorial theory for further development of light-sheet techniques. Potential applications are in planar imaging systems (such as, SPIM, IML-SPIM, imaging cytometry) and spectroscopy.
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Affiliation(s)
- Kavya Mohan
- Nanobioimaging Laboratory, Department of Instrumentation and Applied Physics, Indian Institute of Science, Bangalore, 560012, India
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Pampaloni F, Ansari N, Stelzer EHK. High-resolution deep imaging of live cellular spheroids with light-sheet-based fluorescence microscopy. Cell Tissue Res 2013; 352:161-77. [DOI: 10.1007/s00441-013-1589-7] [Citation(s) in RCA: 118] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2012] [Accepted: 02/12/2013] [Indexed: 01/13/2023]
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28
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From FRET Imaging to Practical Methodology for Kinase Activity Sensing in Living Cells. PROGRESS IN MOLECULAR BIOLOGY AND TRANSLATIONAL SCIENCE 2013; 113:145-216. [DOI: 10.1016/b978-0-12-386932-6.00005-3] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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29
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Höckendorf B, Thumberger T, Wittbrodt J. Quantitative Analysis of Embryogenesis: A Perspective for Light Sheet Microscopy. Dev Cell 2012; 23:1111-20. [DOI: 10.1016/j.devcel.2012.10.008] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2012] [Revised: 10/04/2012] [Accepted: 10/04/2012] [Indexed: 01/06/2023]
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30
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Optical probes and techniques for O2 measurement in live cells and tissue. Cell Mol Life Sci 2012; 69:2025-39. [PMID: 22249195 PMCID: PMC3371327 DOI: 10.1007/s00018-011-0914-0] [Citation(s) in RCA: 138] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2011] [Revised: 12/19/2011] [Accepted: 12/29/2011] [Indexed: 01/03/2023]
Abstract
In recent years, significant progress has been achieved in the sensing and imaging of molecular oxygen (O2) in biological samples containing live cells and tissue. We review recent developments in the measurement of O2 in such samples by optical means, particularly using the phosphorescence quenching technique. The main types of soluble O2 sensors are assessed, including small molecule, supramolecular and particle-based structures used as extracellular or intracellular probes in conjunction with different detection modalities and measurement formats. For the different O2 sensing systems, particular attention is paid to their merits and limitations, analytical performance, general convenience and applicability in specific biological applications. The latter include measurement of O2 consumption rate, sample oxygenation, sensing of intracellular O2, metabolic assessment of cells, and O2 imaging of tissue, vasculature and individual cells. Altogether, this gives the potential user a comprehensive guide for the proper selection of the appropriate optical probe(s) and detection platform to suit their particular biological applications and measurement requirements.
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