1
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Prince MNH, Sain N, Chakraborty T. Remote refocusing for multi-scale imaging. JOURNAL OF BIOMEDICAL OPTICS 2024; 29:080501. [PMID: 39119134 PMCID: PMC11309005 DOI: 10.1117/1.jbo.29.8.080501] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/11/2024] [Revised: 06/25/2024] [Accepted: 07/17/2024] [Indexed: 08/10/2024]
Abstract
Significance The technique of remote focusing (RF) has attracted considerable attention among microscopists due to its ability to quickly adjust focus across different planes, thus facilitating quicker volumetric imaging. However, the difficulty in changing objectives to align with a matching objective in a remote setting while upholding key requirements remains a challenge. Aim We aim to propose a customized yet straightforward technique to align multiple objectives with a remote objective, employing an identical set of optical elements to ensure meeting the criteria of remote focusing. Approach We propose a simple optical approach for aligning multiple objectives with a singular remote objective to achieve a perfect imaging system. This method utilizes readily accessible, commercial optical components to meet the fundamental requirements of remote focusing. Results Our experimental observations indicate that the proposed RF technique offers at least comparable, if not superior, performance over a significant axial depth compared with the conventional RF technique based on commercial lenses while offering the flexibility to switch the objective for multi-scale imaging. Conclusions The proposed technique addresses various microscopy challenges, particularly in the realm of multi-resolution imaging. We have experimentally demonstrated the efficacy of this technique by capturing images of focal volumes generated by two distinct objectives in a water medium.
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Affiliation(s)
- Md Nasful Huda Prince
- University of New Mexico, Department of Physics and Astronomy, Albuquerque, New Mexico, United States
| | - Nikhil Sain
- University of New Mexico, Department of Physics and Astronomy, Albuquerque, New Mexico, United States
| | - Tonmoy Chakraborty
- University of New Mexico, Department of Physics and Astronomy, Albuquerque, New Mexico, United States
- University of New Mexico, Comprehensive Cancer Center, Albuquerque, New Mexico, United States
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2
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Jeon S, Lee J, Kim K, Hong SM, Oh BH, Kim KH. Extended depth-of-field wide-field fluorescence microscopy with a micro-mirror array lens system for versatile cellular examination. OPTICS LETTERS 2024; 49:3368-3371. [PMID: 38875622 DOI: 10.1364/ol.515783] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2024] [Accepted: 04/23/2024] [Indexed: 06/16/2024]
Abstract
We present a versatile extended depth-of-field (EDOF) wide-field fluorescence microscopy using a new, to the best of our knowledge, active device, micro-mirror array lens system (MALS) for calibration-free and orientation-insensitive EDOF imaging. The MALS changed the focal plane during image acquisition, and the system could be operated in any orientation. Two EDOF imaging modes of high-speed accumulation and low-speed surface sectioning were implemented. The performance was demonstrated in non-contact imaging of conjunctival goblet cells in live mice and depth-resolved cellular examination of ex-vivo human cancer specimens. MALS-based EDOF microscopy has potential for versatile cellular examination.
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3
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Dibaji H, Kazemi Nasaban Shotorban A, Grattan RM, Lucero S, Schodt DJ, Lidke KA, Petruccelli J, Lidke DS, Liu S, Chakraborty T. Axial de-scanning using remote focusing in the detection arm of light-sheet microscopy. Nat Commun 2024; 15:5019. [PMID: 38866746 PMCID: PMC11169345 DOI: 10.1038/s41467-024-49291-0] [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: 09/20/2023] [Accepted: 05/31/2024] [Indexed: 06/14/2024] Open
Abstract
Rapid, high-resolution volumetric imaging without moving heavy objectives or disturbing delicate samples remains challenging. Pupil-matched remote focusing offers a promising solution for high NA systems, but the fluorescence signal's incoherent and unpolarized nature complicates its application. Thus, remote focusing is mainly used in the illumination arm with polarized laser light to improve optical coupling. Here, we introduce a novel optical design that can de-scan the axial focus movement in the detection arm of a microscope. Our method splits the fluorescence signal into S and P-polarized light, lets them pass through the remote focusing module separately, and combines them with the camera. This allows us to use only one focusing element to perform aberration-free, multi-color, volumetric imaging without (a) compromising the fluorescent signal and (b) needing to perform sample/detection-objective translation. We demonstrate the capabilities of this scheme by acquiring fast dual-color 4D (3D space + time) image stacks with an axial range of 70 μm and camera-limited acquisition speed. Owing to its general nature, we believe this technique will find its application in many other microscopy techniques that currently use an adjustable Z-stage to carry out volumetric imaging, such as confocal, 2-photon, and light sheet variants.
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Affiliation(s)
- Hassan Dibaji
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM, USA
| | | | - Rachel M Grattan
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, NM, USA
- Department of Pathology, University of New Mexico Health Science Center, Albuquerque, NM, USA
| | - Shayna Lucero
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, NM, USA
- Department of Pathology, University of New Mexico Health Science Center, Albuquerque, NM, USA
| | - David J Schodt
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM, USA
| | - Keith A Lidke
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM, USA
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, NM, USA
| | - Jonathan Petruccelli
- Department of Physics, University at Albany-State University of NewYork, Albany, NY, USA
| | - Diane S Lidke
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, NM, USA
- Department of Pathology, University of New Mexico Health Science Center, Albuquerque, NM, USA
| | - Sheng Liu
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM, USA
| | - Tonmoy Chakraborty
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM, USA.
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, NM, USA.
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4
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Liu Y, Zhang H, Li X. Technologies for depth scanning in miniature optical imaging systems [Invited]. BIOMEDICAL OPTICS EXPRESS 2023; 14:6542-6562. [PMID: 38420321 PMCID: PMC10898578 DOI: 10.1364/boe.507078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Revised: 11/16/2023] [Accepted: 11/17/2023] [Indexed: 03/02/2024]
Abstract
Biomedical optical imaging has found numerous clinical and research applications. For achieving 3D imaging, depth scanning presents the most significant challenge, particularly in miniature imaging devices. This paper reviews the state-of-art technologies for depth scanning in miniature optical imaging systems, which include two general approaches: 1) physically shifting part of or the entire imaging device to allow imaging at different depths and 2) optically changing the focus of the imaging optics. We mainly focus on the second group of methods, introducing a wide variety of tunable microlenses, covering the underlying physics, actuation mechanisms, and imaging performance. Representative applications in clinical and neuroscience research are briefly presented. Major challenges and future perspectives of depth/focus scanning technologies for biomedical optical imaging are also discussed.
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Affiliation(s)
- Yuehan Liu
- Department of Electrical and Computer Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA
| | - Haolin Zhang
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21205, USA
| | - Xingde Li
- Department of Electrical and Computer Engineering, Johns Hopkins University, Baltimore, Maryland 21218, USA
- Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland 21205, USA
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5
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DIBAJI HASSAN, SHOTORBAN ALIKAZEMINASABAN, HABIBI MAHSA, GRATTAN RACHELM, LUCERO SHAYNA, SCHODT DAVIDJ, LIDKE KEITHA, PETRUCCELLI JONATHAN, LIDKE DIANES, LIU SHENG, CHAKRABORTY TONMOY. Axial de-scanning using remote focusing in the detection arm of light-sheet microscopy. RESEARCH SQUARE 2023:rs.3.rs-3338831. [PMID: 37886461 PMCID: PMC10602066 DOI: 10.21203/rs.3.rs-3338831/v1] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/28/2023]
Abstract
The ability to image at high speeds is necessary in biological imaging to capture fast-moving or transient events or to efficiently image large samples. However, due to the lack of rigidity of biological specimens, carrying out fast, high-resolution volumetric imaging without moving and agitating the sample has been a challenging problem. Pupil-matched remote focusing has been promising for high NA imaging systems with their low aberrations and wavelength independence, making it suitable for multicolor imaging. However, owing to the incoherent and unpolarized nature of the fluorescence signal, manipulating this emission light through remote focusing is challenging. Therefore, remote focusing has been primarily limited to the illumination arm, using polarized laser light for facilitating coupling in and out of the remote focusing optics. Here we introduce a novel optical design that can de-scan the axial focus movement in the detection arm of a microscope. Our method splits the fluorescence signal into S and P-polarized light and lets them pass through the remote focusing module separately and combines them with the camera. This allows us to use only one focusing element to perform aberration-free, multi-color, volumetric imaging without (a) compromising the fluorescent signal and (b) needing to perform sample/detection-objective translation. We demonstrate the capabilities of this scheme by acquiring fast dual-color 4D (3D space + time) image stacks, with an axial range of 70 μm and camera limited acquisition speed. Owing to its general nature, we believe this technique will find its application to many other microscopy techniques that currently use an adjustable Z-stage to carry out volumetric imaging such as confocal, 2-photon, and light sheet variants.
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Affiliation(s)
- HASSAN DIBAJI
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, New Mexico 87131, USA
| | | | - MAHSA HABIBI
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, New Mexico 87131, USA
| | - RACHEL M GRATTAN
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, New Mexico, 87131, USA
- Department of Pathology, University of New Mexico Health Science Center, Albuquerque, NM, USA
| | - SHAYNA LUCERO
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, New Mexico, 87131, USA
- Department of Pathology, University of New Mexico Health Science Center, Albuquerque, NM, USA
| | - DAVID J. SCHODT
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, New Mexico 87131, USA
| | - KEITH A. LIDKE
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, New Mexico 87131, USA
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, New Mexico, 87131, USA
| | - JONATHAN PETRUCCELLI
- Department of Physics, University at Albany–State University of NewYork,1400 Washington Avenue, Albany, NY 12222, USA
| | - DIANE S. LIDKE
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, New Mexico, 87131, USA
- Department of Pathology, University of New Mexico Health Science Center, Albuquerque, NM, USA
| | - SHENG LIU
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, New Mexico 87131, USA
| | - TONMOY CHAKRABORTY
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, New Mexico 87131, USA
- Comprehensive Cancer Center, University of New Mexico Health Sciences Center, Albuquerque, New Mexico, 87131, USA
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6
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Hong W, Sparks H, Dunsby C. Alignment and characterization of remote-refocusing systems. APPLIED OPTICS 2023; 62:7431-7440. [PMID: 37855511 PMCID: PMC10575606 DOI: 10.1364/ao.500281] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/11/2023] [Revised: 09/04/2023] [Accepted: 09/06/2023] [Indexed: 10/20/2023]
Abstract
The technique of remote refocusing is used in optical microscopy to provide rapid axial scanning without mechanically perturbing the sample and in techniques such as oblique plane microscopy that build on remote refocusing to image a tilted plane within the sample. The magnification between the pupils of the primary (O1) and secondary (O2) microscope objectives of the remote-refocusing system has been shown previously by Mohanan and Corbett [J. Microsc.288, 95 (2022)JMICAR0022-272010.1111/jmi.12991] to be crucial in obtaining the broadest possible remote-refocusing range. In this work, we performed an initial alignment of a remote-refocusing system and then studied the effect of axial misalignments of O1 and O2, axial misalignment of the primary tube lens (TL1) relative to the secondary tube lens (TL2), lateral misalignments of TL2, and changes in the focal length of TL2. For each instance of the setup, we measured the mean point spread function F W H M xy of 100 nm fluorescent beads and the normalized bead integrated fluorescence signal, and we calculated the axial and lateral distortion of the system; all of these quantities were mapped over the remote-refocusing range and as a function of lateral image position. This allowed us to estimate the volume over which diffraction-limited performance is achieved and how this changes with the alignment of the system.
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Affiliation(s)
- Wenzhi Hong
- Photonics Group, Physics Department, Imperial College London, London, UK
| | - Hugh Sparks
- Photonics Group, Physics Department, Imperial College London, London, UK
| | - Chris Dunsby
- Photonics Group, Physics Department, Imperial College London, London, UK
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7
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Yamaguchi A, Wu R, McNulty P, Karagyozov D, Mihovilovic Skanata M, Gershow M. Multi-neuronal recording in unrestrained animals with all acousto-optic random-access line-scanning two-photon microscopy. Front Neurosci 2023; 17:1135457. [PMID: 37389365 PMCID: PMC10303936 DOI: 10.3389/fnins.2023.1135457] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Accepted: 05/18/2023] [Indexed: 07/01/2023] Open
Abstract
To understand how neural activity encodes and coordinates behavior, it is desirable to record multi-neuronal activity in freely behaving animals. Imaging in unrestrained animals is challenging, especially for those, like larval Drosophila melanogaster, whose brains are deformed by body motion. A previously demonstrated two-photon tracking microscope recorded from individual neurons in freely crawling Drosophila larvae but faced limits in multi-neuronal recording. Here we demonstrate a new tracking microscope using acousto-optic deflectors (AODs) and an acoustic GRIN lens (TAG lens) to achieve axially resonant 2D random access scanning, sampling along arbitrarily located axial lines at a line rate of 70 kHz. With a tracking latency of 0.1 ms, this microscope recorded activities of various neurons in moving larval Drosophila CNS and VNC including premotor neurons, bilateral visual interneurons, and descending command neurons. This technique can be applied to the existing two-photon microscope to allow for fast 3D tracking and scanning.
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Affiliation(s)
- Akihiro Yamaguchi
- Department of Physics, New York University, New York, NY, United States
| | - Rui Wu
- Department of Physics, New York University, New York, NY, United States
| | - Paul McNulty
- Department of Physics, New York University, New York, NY, United States
| | - Doycho Karagyozov
- Department of Physics, New York University, New York, NY, United States
| | | | - Marc Gershow
- Department of Physics, New York University, New York, NY, United States
- Center for Neural Science, New York University, New York, NY, United States
- Neuroscience Institute, New York University, New York, NY, United States
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8
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Baker CM, Gong Y. Identifying properties of pattern completion neurons in a computational model of the visual cortex. PLoS Comput Biol 2023; 19:e1011167. [PMID: 37279242 DOI: 10.1371/journal.pcbi.1011167] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2022] [Accepted: 05/09/2023] [Indexed: 06/08/2023] Open
Abstract
Neural ensembles are found throughout the brain and are believed to underlie diverse cognitive functions including memory and perception. Methods to activate ensembles precisely, reliably, and quickly are needed to further study the ensembles' role in cognitive processes. Previous work has found that ensembles in layer 2/3 of the visual cortex (V1) exhibited pattern completion properties: ensembles containing tens of neurons were activated by stimulation of just two neurons. However, methods that identify pattern completion neurons are underdeveloped. In this study, we optimized the selection of pattern completion neurons in simulated ensembles. We developed a computational model that replicated the connectivity patterns and electrophysiological properties of layer 2/3 of mouse V1. We identified ensembles of excitatory model neurons using K-means clustering. We then stimulated pairs of neurons in identified ensembles while tracking the activity of the entire ensemble. Our analysis of ensemble activity quantified a neuron pair's power to activate an ensemble using a novel metric called pattern completion capability (PCC) based on the mean pre-stimulation voltage across the ensemble. We found that PCC was directly correlated with multiple graph theory parameters, such as degree and closeness centrality. To improve selection of pattern completion neurons in vivo, we computed a novel latency metric that was correlated with PCC and could potentially be estimated from modern physiological recordings. Lastly, we found that stimulation of five neurons could reliably activate ensembles. These findings can help researchers identify pattern completion neurons to stimulate in vivo during behavioral studies to control ensemble activation.
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Affiliation(s)
- Casey M Baker
- Department of Biomedical Engineering, Duke University, Durham, North Carolina, United States of America
| | - Yiyang Gong
- Department of Biomedical Engineering, Duke University, Durham, North Carolina, United States of America
- Department of Neurobiology, Duke University, Durham, North Carolina, United States of America
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9
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Yu X, Zhou L, Qi T, Zhao H, Xie H. MEMS Enabled Miniature Two-Photon Microscopy for Biomedical Imaging. MICROMACHINES 2023; 14:470. [PMID: 36838170 PMCID: PMC9958604 DOI: 10.3390/mi14020470] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 01/22/2023] [Revised: 02/07/2023] [Accepted: 02/07/2023] [Indexed: 06/18/2023]
Abstract
Over the last decade, two-photon microscopy (TPM) has been the technique of choice for in vivo noninvasive optical brain imaging for neuroscientific study or intra-vital microendoscopic imaging for clinical diagnosis or surgical guidance because of its intrinsic capability of optical sectioning for imaging deeply below the tissue surface with sub-cellular resolution. However, most of these research activities and clinical applications are constrained by the bulky size of traditional TMP systems. An attractive solution is to develop miniaturized TPMs, but this is challenged by the difficulty of the integration of dynamically scanning optical and mechanical components into a small space. Fortunately, microelectromechanical systems (MEMS) technology, together with other emerging micro-optics techniques, has offered promising opportunities in enabling miniaturized TPMs. In this paper, the latest advancements in both lateral scan and axial scan techniques and the progress of miniaturized TPM imaging will be reviewed in detail. Miniature TPM probes with lateral 2D scanning mechanisms, including electrostatic, electromagnetic, and electrothermal actuation, are reviewed. Miniature TPM probes with axial scanning mechanisms, such as MEMS microlenses, remote-focus, liquid lenses, and deformable MEMS mirrors, are also reviewed.
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Affiliation(s)
- Xiaomin Yu
- Key Laboratory of Biological Effect of Physical Field and Instrument, Department of Electrical and Electronic Engineering, Chengdu University of Information Technology, Chengdu 610225, China
| | - Liang Zhou
- Department of Electrical and Computer Engineering, University of Florida, Gainesville, FL 32611, USA
| | - Tingxiang Qi
- BIT Chongqing Institute of Microelectronics and Microsystems, Chongqing 401332, China
| | - Hui Zhao
- BIT Chongqing Institute of Microelectronics and Microsystems, Chongqing 401332, China
- Foshan Lightview Technology Co., Ltd., Foshan 528000, China
| | - Huikai Xie
- BIT Chongqing Institute of Microelectronics and Microsystems, Chongqing 401332, China
- Foshan Lightview Technology Co., Ltd., Foshan 528000, China
- School of Integrated Circuits and Electronics, Beijing Institute of Technology, Beijing 100081, China
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10
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Sims RR, Bendifallah I, Grimm C, Mohamed-Lafirdeen A, Lu X, St-Pierre F, Papagiakoumou E, Emiliani V. Scanless two-photon voltage imaging. RESEARCH SQUARE 2023:rs.3.rs-2412371. [PMID: 36747617 PMCID: PMC9900978 DOI: 10.21203/rs.3.rs-2412371/v1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
Parallel light-sculpting methods have been used to perform scanless two-photon photostimulation of multiple neurons simultaneously during all-optical neurophysiology experiments. We demonstrate that scanless two-photon excitation also enables high-resolution, high-contrast, voltage imaging by efficiently exciting fluorescence in a large fraction of the cellular soma. We present a thorough characterisation of scanless two-photon voltage imaging using existing parallel approaches and lasers with different repetition rates. We demonstrate voltage recordings of high frequency spike trains and sub-threshold depolarizations in intact brain tissue from neurons expressing the soma-targeted genetically encoded voltage indicator JEDI-2P-kv. Using a low repetition-rate laser, we perform recordings from up to ten neurons simultaneously. Finally, by co-expressing JEDI-2P-kv and the channelrhodopsin ChroME-ST in neurons of hippocampal organotypic slices, we perform single-beam, simultaneous, two-photon voltage imaging and photostimulation. This enables in-situ validation of the precise number and timing of light evoked action potentials and will pave the way for rapid and scalable identification of functional brain connections in intact neural circuits.
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Affiliation(s)
- Ruth R. Sims
- Institut de la Vision, Sorbonne Université, INSERM, CNRS, F-75012 Paris, France
| | - Imane Bendifallah
- Institut de la Vision, Sorbonne Université, INSERM, CNRS, F-75012 Paris, France
| | - Christiane Grimm
- Institut de la Vision, Sorbonne Université, INSERM, CNRS, F-75012 Paris, France
| | | | - Xiaoyu Lu
- Systems, Synthetic, and Physical Biology Program, Rice University, Houston, TX, USA
| | - François St-Pierre
- Systems, Synthetic, and Physical Biology Program, Rice University, Houston, TX, USA
- Department of Neuroscience and Department of Biochemistry and Molecular Biology, Houston, TX, USA
- Department of Electrical and Computer Engineering, Rice University, Houston, TX, USA
| | | | - Valentina Emiliani
- Institut de la Vision, Sorbonne Université, INSERM, CNRS, F-75012 Paris, France
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11
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Zhou Q, Nozdriukhin D, Chen Z, Glandorf L, Hofmann UAT, Reiss M, Tang L, Deán‐Ben XL, Razansky D. Depth-Resolved Localization Microangiography in the NIR-II Window. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2022; 10:e2204782. [PMID: 36403231 PMCID: PMC9811471 DOI: 10.1002/advs.202204782] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/19/2022] [Revised: 10/17/2022] [Indexed: 06/16/2023]
Abstract
Detailed characterization of microvascular alterations requires high-resolution 3D imaging methods capable of providing both morphological and functional information. Existing optical microscopy tools are routinely used for microangiography, yet offer suboptimal trade-offs between the achievable field of view and spatial resolution with the intense light scattering in biological tissues further limiting the achievable penetration depth. Herein, a new approach for volumetric deep-tissue microangiography based on stereovision combined with super-resolution localization imaging is introduced that overcomes the spatial resolution limits imposed by light diffusion and optical diffraction in wide-field imaging configurations. The method capitalizes on localization and tracking of flowing fluorescent particles in the second near-infrared window (NIR-II, ≈1000-1700 nm), with the third (depth) dimension added by triangulation and stereo-matching of images acquired with two short-wave infrared cameras operating in a dual-view mode. The 3D imaging capability enabled with the proposed method facilitates a detailed visualization of microvascular networks and an accurate blood flow quantification. Experiments performed in tissue-mimicking phantoms demonstrate that high resolution is preserved up to a depth of 4 mm in a turbid medium. Transcranial microangiography of the entire murine cortex and penetrating vessels is further demonstrated at capillary level resolution.
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Affiliation(s)
- Quanyu Zhou
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
| | - Daniil Nozdriukhin
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
| | - Zhenyue Chen
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
| | - Lukas Glandorf
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
| | - Urs A. T. Hofmann
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
| | - Michael Reiss
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
| | - Lin Tang
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
| | - Xosé Luís Deán‐Ben
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
| | - Daniel Razansky
- Institute of Pharmacology and Toxicology and Institute for Biomedical EngineeringFaculty of MedicineUniversity of ZurichZurich8057Switzerland
- Institute for Biomedical EngineeringDepartment of Information Technology and Electrical EngineeringETH ZurichZurich8093Switzerland
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12
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Isotropic imaging across spatial scales with axially swept light-sheet microscopy. Nat Protoc 2022; 17:2025-2053. [PMID: 35831614 PMCID: PMC10111370 DOI: 10.1038/s41596-022-00706-6] [Citation(s) in RCA: 22] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2021] [Accepted: 03/30/2022] [Indexed: 11/09/2022]
Abstract
Light-sheet fluorescence microscopy is a rapidly growing technique that has gained tremendous popularity in the life sciences owing to its high-spatiotemporal resolution and gentle, non-phototoxic illumination. In this protocol, we provide detailed directions for the assembly and operation of a versatile light-sheet fluorescence microscopy variant, referred to as axially swept light-sheet microscopy (ASLM), that delivers an unparalleled combination of field of view, optical resolution and optical sectioning. To democratize ASLM, we provide an overview of its working principle and applications to biological imaging, as well as pragmatic tips for the assembly, alignment and control of its optical systems. Furthermore, we provide detailed part lists and schematics for several variants of ASLM that together can resolve molecular detail in chemically expanded samples, subcellular organization in living cells or the anatomical composition of chemically cleared intact organisms. We also provide software for instrument control and discuss how users can tune imaging parameters to accommodate diverse sample types. Thus, this protocol will serve not only as a guide for both introductory and advanced users adopting ASLM, but as a useful resource for any individual interested in deploying custom imaging technology. We expect that building an ASLM will take ~1-2 months, depending on the experience of the instrument builder and the version of the instrument.
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13
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Hong W, Dunsby C. Automatic tube lens design from stock optics for microscope remote-refocusing systems. OPTICS EXPRESS 2022; 30:4274-4287. [PMID: 35209667 DOI: 10.1364/oe.450320] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2021] [Accepted: 01/16/2022] [Indexed: 06/14/2023]
Abstract
The remote-refocusing approach of Botcherby et al. [Opt. Lett.32, 2007 (2007)10.1364/OL.32.002007] has been applied widely to 2D and 3D fluorescence microscopes to enable rapid refocusing of the optical system without mechanically perturbing the sample. In order for this approach to operate correctly, it requires that the overall magnification of the first two microscope systems matches the ratio of the refractive indices in sample and intermedia image spaces. However, commercially available tube lenses are not always suitable to produce the desired overall magnification. Therefore, a practical approach to produce tube lenses with low expense and diffraction-limited performance is required. Tube lenses can be formed using a pair of stock achromatic doublets, however, selecting appropriate pairs of achromatic doublets from stock optics is a time-consuming process, as many combinations can be considered. In this paper, we present two software packages (Catalogue Generator and Doublet Selector) developed in MATLAB that use the application programming interface (ZOS-API) to the Zemax OpticStudio optical design software to realise an automatic search of stock achromatic doublets to produce microscope tube lenses with a specified focal length, entrance pupil diameter and maximum design field angle. An algorithm to optimise principal plane positions in versions of OpticStudio before 20.2 was also introduced to enable the use of older software versions. To evaluate the performance of Catalogue Generator and Doublet Selector, we used them to generate ten tube lens designs. All of the software-produced tube lenses have a better optical performance than those using manually selected pairs of stock doublets lenses.
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14
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Kim TH, Schnitzer MJ. Fluorescence imaging of large-scale neural ensemble dynamics. Cell 2022; 185:9-41. [PMID: 34995519 PMCID: PMC8849612 DOI: 10.1016/j.cell.2021.12.007] [Citation(s) in RCA: 68] [Impact Index Per Article: 34.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Revised: 12/06/2021] [Accepted: 12/07/2021] [Indexed: 12/14/2022]
Abstract
Recent progress in fluorescence imaging allows neuroscientists to observe the dynamics of thousands of individual neurons, identified genetically or by their connectivity, across multiple brain areas and for extended durations in awake behaving mammals. We discuss advances in fluorescent indicators of neural activity, viral and genetic methods to express these indicators, chronic animal preparations for long-term imaging studies, and microscopes to monitor and manipulate the activity of large neural ensembles. Ca2+ imaging studies of neural activity can track brain area interactions and distributed information processing at cellular resolution. Across smaller spatial scales, high-speed voltage imaging reveals the distinctive spiking patterns and coding properties of targeted neuron types. Collectively, these innovations will propel studies of brain function and dovetail with ongoing neuroscience initiatives to identify new neuron types and develop widely applicable, non-human primate models. The optical toolkit's growing sophistication also suggests that "brain observatory" facilities would be useful open resources for future brain-imaging studies.
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Affiliation(s)
- Tony Hyun Kim
- James Clark Center for Biomedical Engineering & Sciences, Stanford University, Stanford, CA 94305, USA; CNC Program, Stanford University, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA.
| | - Mark J Schnitzer
- James Clark Center for Biomedical Engineering & Sciences, Stanford University, Stanford, CA 94305, USA; CNC Program, Stanford University, Stanford, CA 94305, USA; Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305, USA.
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15
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Kowalski B, Akondi V, Dubra A. Correction of non-uniform angular velocity and sub-pixel jitter in optical scanning. OPTICS EXPRESS 2022; 30:112-124. [PMID: 35201185 PMCID: PMC8970701 DOI: 10.1364/oe.446162] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2021] [Revised: 12/10/2021] [Accepted: 12/10/2021] [Indexed: 05/08/2023]
Abstract
Optical scanners are widely used in high-resolution scientific, medical, and industrial devices. The accuracy and precision of these instruments are often limited by angular speed fluctuations due to rotational inertia and by poor synchronization between scanning and light detection, respectively. Here we demonstrate that both problems can be mitigated by recording scanner orientation in synchrony with light detection, followed by data resampling. This approach is illustrated with synthetic and experimental data from a point-scanning microscope with a resonant scanner and a non-resonant scanner. Fitting of the resonant scanner orientation data to a cosine model was used to correct image warping and sampling jitter, as well as to precisely interleave image lines collected during the clockwise and counterclockwise resonant scanner portions of the rotation cycle. Vertical scanner orientation data interpolation was used to correct image distortion due to angular speed fluctuations following abrupt control signal changes.
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Affiliation(s)
| | - Vyas Akondi
- Byers Eye Institute, Stanford University, Palo Alto, CA 94303, USA
| | - Alfredo Dubra
- Byers Eye Institute, Stanford University, Palo Alto, CA 94303, USA
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16
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Akemann W, Wolf S, Villette V, Mathieu B, Tangara A, Fodor J, Ventalon C, Léger JF, Dieudonné S, Bourdieu L. Fast optical recording of neuronal activity by three-dimensional custom-access serial holography. Nat Methods 2022; 19:100-110. [PMID: 34949810 DOI: 10.1038/s41592-021-01329-7] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2019] [Accepted: 10/25/2021] [Indexed: 11/08/2022]
Abstract
Optical recording of neuronal activity in three-dimensional (3D) brain circuits at cellular and millisecond resolution in vivo is essential for probing information flow in the brain. While random-access multiphoton microscopy permits fast optical access to neuronal targets in three dimensions, the method is challenged by motion artifacts when recording from behaving animals. Therefore, we developed three-dimensional custom-access serial holography (3D-CASH). Built on a fast acousto-optic light modulator, 3D-CASH performs serial sampling at 40 kHz from neurons at freely selectable 3D locations. Motion artifacts are eliminated by targeting each neuron with a size-optimized pattern of excitation light covering the cell body and its anticipated displacement field. Spike rates inferred from GCaMP6f recordings in visual cortex of awake mice tracked the phase of a moving bar stimulus with higher spike correlation between intra compared to interlaminar neuron pairs. 3D-CASH offers access to the millisecond correlation structure of in vivo neuronal activity in 3D microcircuits.
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Affiliation(s)
- Walther Akemann
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Sébastien Wolf
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
- Laboratoire de Physique de l'ENS (LPENS), École Normale Supérieure, CNRS, Université PSL, Paris, France
| | - Vincent Villette
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Benjamin Mathieu
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Astou Tangara
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Jozsua Fodor
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Cathie Ventalon
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Jean-François Léger
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France
| | - Stéphane Dieudonné
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France.
| | - Laurent Bourdieu
- Institut de Biologie de l'ENS (IBENS), École Normale Supérieure, CNRS, INSERM, Université PSL, Paris, France.
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17
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Wright T, Sparks H, Paterson C, Dunsby C. Video-rate remote refocusing through continuous oscillation of a membrane deformable mirror. JPHYS PHOTONICS 2021; 3:045004. [PMID: 34693207 PMCID: PMC8523955 DOI: 10.1088/2515-7647/ac29a2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2021] [Revised: 07/27/2021] [Accepted: 09/23/2021] [Indexed: 06/13/2023] Open
Abstract
This paper presents the use of a deformable mirror (DM) configured to rapidly refocus a microscope employing a high numerical aperture (NA) objective lens. An Alpao DM97-15 membrane DM was used to refocus a 40×/0.80 NA water-immersion objective through a defocus range of -50-50 μm at 26.3 sweeps s-1. We achieved imaging with a mean Strehl metric of >0.6 over a field of view in the sample of 200 × 200 μm2 over a defocus range of 77 μm. We describe an optimisation procedure where the mirror is swept continuously in order to avoid known problems of hysteresis associated with the membrane DM employed. This work demonstrates that a DM-based refocusing system could in the future be used in light-sheet fluorescence microscopes to achieve video-rate volumetric imaging.
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Affiliation(s)
- Terry Wright
- Photonics Group, Department of Physics, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom
| | - Hugh Sparks
- Photonics Group, Department of Physics, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom
| | - Carl Paterson
- Photonics Group, Department of Physics, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom
| | - Chris Dunsby
- Photonics Group, Department of Physics, Imperial College London, South Kensington Campus, London SW7 2AZ, United Kingdom
- Centre for Pathology, Department of Medicine, Imperial College London, Du Cane Road, London W12 0NN, United Kingdom
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18
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Efstathiou C, Draviam VM. Electrically tunable lenses - eliminating mechanical axial movements during high-speed 3D live imaging. J Cell Sci 2021; 134:271866. [PMID: 34409445 DOI: 10.1242/jcs.258650] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022] Open
Abstract
The successful investigation of photosensitive and dynamic biological events, such as those in a proliferating tissue or a dividing cell, requires non-intervening high-speed imaging techniques. Electrically tunable lenses (ETLs) are liquid lenses possessing shape-changing capabilities that enable rapid axial shifts of the focal plane, in turn achieving acquisition speeds within the millisecond regime. These human-eye-inspired liquid lenses can enable fast focusing and have been applied in a variety of cell biology studies. Here, we review the history, opportunities and challenges underpinning the use of cost-effective high-speed ETLs. Although other, more expensive solutions for three-dimensional imaging in the millisecond regime are available, ETLs continue to be a powerful, yet inexpensive, contender for live-cell microscopy.
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Affiliation(s)
- Christoforos Efstathiou
- School of Biological and Chemical Sciences , Queen Mary University of London, London, E1 4NS, UK
| | - Viji M Draviam
- School of Biological and Chemical Sciences , Queen Mary University of London, London, E1 4NS, UK
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19
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Three-Dimensional X-ray Imaging of β-Galactosidase Reporter Activity by Micro-CT: Implication for Quantitative Analysis of Gene Expression. Brain Sci 2021; 11:brainsci11060746. [PMID: 34199780 PMCID: PMC8230009 DOI: 10.3390/brainsci11060746] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2021] [Revised: 05/24/2021] [Accepted: 05/27/2021] [Indexed: 02/07/2023] Open
Abstract
Acquisition of detailed anatomical and molecular knowledge from intact biological samples while preserving their native three-dimensional structure is still a challenging issue for imaging studies aiming to unravel a system's functions. Three-dimensional micro-CT X-ray imaging with a high spatial resolution in minimally perturbed naive non-transparent samples has recently gained increased popularity and broad application in biomedical research. Here, we describe a novel X-ray-based methodology for analysis of β-galactosidase (lacZ) reporter-driven gene expression in an intact murine brain ex vivo by micro-CT. The method relies on detection of bromine molecules in the product of the enzymatic β-galactosidase reaction. Enhancement of the X-ray signal is observed specifically in the regions of the murine brain where expression of the lacZ reporter gene is also detected histologically. We performed quantitative analysis of the expression levels of lacZ reporter activity by relative radiodensity estimation of the β-galactosidase/X-gal precipitate in situ. To demonstrate the feasibility of the method, we performed expression analysis of the Tsen54-lacZ reporter gene in the murine brain in a semi-quantitative manner. Human mutations in the Tsen54 gene cause pontocerebellar hypoplasia (PCH), a group of severe neurodegenerative disorders with both mental and motor deficits. Comparing relative levels of Tsen54 gene expression, we demonstrate that the highest Tsen54 expression is observed in anatomical brain substructures important for the normal motor and memory functions in mice.
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20
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Strother JA. Reduction of spherical and chromatic aberration in axial-scanning optical systems with tunable lenses. BIOMEDICAL OPTICS EXPRESS 2021; 12:3530-3552. [PMID: 34221677 PMCID: PMC8221928 DOI: 10.1364/boe.422936] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/26/2021] [Revised: 05/02/2021] [Accepted: 05/12/2021] [Indexed: 05/02/2023]
Abstract
Optical systems with integrated tunable lenses allow for rapid axial-scanning without mechanical translation of the components. However, changing the power of the tunable lens typically upsets aberration balancing across the system, introducing spherical and chromatic aberrations that limit the usable axial range. This study develops an analytical approximation for the tuning-induced spherical and axial chromatic aberration of a general optical system containing a tunable lens element. The resulting model indicates that systems can be simultaneously corrected for both tuning-induced spherical and chromatic aberrations by controlling the lateral magnification, coma, and pupil lateral color prior to the tunable surface. These insights are then used to design a realizable axial-scanning microscope system with a high numerical aperture and diffraction-limited performance over a wide field of view and deep axial range.
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21
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Valera AM, Neufeldt FC, Kirkby PA, Mitchell JE, Silver RA. Precompensation of 3D field distortions in remote focus two-photon microscopy. BIOMEDICAL OPTICS EXPRESS 2021; 12:3717-3728. [PMID: 34221690 PMCID: PMC8221938 DOI: 10.1364/boe.425588] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/19/2021] [Revised: 05/07/2021] [Accepted: 05/14/2021] [Indexed: 06/13/2023]
Abstract
Remote focusing is widely used in 3D two-photon microscopy and 3D photostimulation because it enables fast axial scanning without moving the objective lens or specimen. However, due to the design constraints of microscope optics, remote focus units are often located in non-telecentric positions in the optical path, leading to significant depth-dependent 3D field distortions in the imaging volume. To address this limitation, we characterized 3D field distortions arising from non-telecentric remote focusing and present a method for distortion precompensation. We demonstrate its applicability for a 3D two-photon microscope that uses an acousto-optic lens (AOL) for remote focusing and scanning. We show that the distortion precompensation method improves the pointing precision of the AOL microscope to < 0.5 µm throughout the 400 × 400 × 400 µm imaging volume.
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Affiliation(s)
- Antoine M. Valera
- Department of Neuroscience, Physiology and Pharmacology, University College London, Gower Street, London WC1E 6BT, UK
- These authors contributed equally
| | - Fiona C. Neufeldt
- Department of Neuroscience, Physiology and Pharmacology, University College London, Gower Street, London WC1E 6BT, UK
- Department of Electronic and Electrical Engineering, University College London, Malet Place, London WC1E 7JE, UK
- These authors contributed equally
| | - Paul A. Kirkby
- Department of Neuroscience, Physiology and Pharmacology, University College London, Gower Street, London WC1E 6BT, UK
| | - John E. Mitchell
- Department of Electronic and Electrical Engineering, University College London, Malet Place, London WC1E 7JE, UK
| | - R. Angus Silver
- Department of Neuroscience, Physiology and Pharmacology, University College London, Gower Street, London WC1E 6BT, UK
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22
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Yang Y, Chen W, Fan JL, Ji N. Adaptive optics enables aberration-free single-objective remote focusing for two-photon fluorescence microscopy. BIOMEDICAL OPTICS EXPRESS 2021; 12:354-366. [PMID: 33520387 PMCID: PMC7818949 DOI: 10.1364/boe.413049] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Accepted: 11/18/2020] [Indexed: 05/14/2023]
Abstract
Two-photon fluorescence microscopy has been widely applied to three-dimensional (3D) imaging of complex samples. Remote focusing by controlling the divergence of excitation light is a common approach to scanning the focus axially. However, microscope objectives induce distortion to the wavefront of non-collimated excitation beams, leading to degraded imaging quality away from the natural focal plane. In this paper, using a liquid-crystal spatial light modulator to control the divergence of the excitation beam through a single objective, we systematically characterized the aberrations introduced by divergence control through microscope objectives of NA 0.45, 0.8, and 1.05. We used adaptive optics to correct the divergence-induced-aberrations and maintain diffraction-limited focal quality over up to 800-µm axial range. We further demonstrated aberration-free remote focusing for in vivo imaging of neurites and synapses in the mouse brain.
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Affiliation(s)
- Yuhan Yang
- Department of Physics, University of California, Berkeley, CA 94720, USA
| | - Wei Chen
- Department of Physics, University of California, Berkeley, CA 94720, USA
- Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA
| | - Jiang Lan Fan
- Joint Graduate Program in Bioengineering, University of California, Berkeley and University of California, San Francisco, CA 94720, USA
| | - Na Ji
- Department of Physics, University of California, Berkeley, CA 94720, USA
- Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA
- Helen Wills Neuroscience Institute, University of California, Berkeley, CA 94720, USA
- Molecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA
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23
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Peinado A, Bendek E, Yokoyama S, Poskanzer KE. Deformable mirror-based axial scanning for two-photon mammalian brain imaging. NEUROPHOTONICS 2021; 8:015003. [PMID: 33437848 PMCID: PMC7778453 DOI: 10.1117/1.nph.8.1.015003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/12/2020] [Accepted: 12/09/2020] [Indexed: 06/12/2023]
Abstract
Significance: To expand our understanding of the roles of astrocytes in neural circuits, there is a need to develop optical tools tailored specifically to capture their complex spatiotemporal Ca 2 + dynamics. This interest is not limited to 2D, but to multiple depths. Aim: The focus of our work was to design and evaluate the optical performance of an enhanced version of a two-photon (2P) microscope with the addition of a deformable mirror (DM)-based axial scanning system for live mammalian brain imaging. Approach: We used a DM to manipulate the beam wavefront by applying different defocus terms to cause a controlled axial shift of the image plane. The optical design and performance were evaluated by an analysis of the optical model, followed by an experimental characterization of the implemented instrument. Results: Key questions related to this instrument were addressed, including impact of the DM curvature change on vignetting, field of view size, image plane flatness, wavefront error, and point spread function. The instrument was used for imaging several neurobiological samples at different depths, including fixed brain slices and in vivo mouse cerebral cortex. Conclusions: Our implemented instrument was capable of recording z -stacks of 53 μ m in depth with a fine step size, parameters that make it useful for astrocyte biology research. Future work includes adaptive optics and intensity normalization.
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Affiliation(s)
- Alba Peinado
- University of California, San Francisco, Department of Biochemistry and Biophysics, San Francisco, California, United States
| | - Eduardo Bendek
- National Aeronautics and Space Administration, AMES Research Center, Moffet Field, California, United States
| | - Sae Yokoyama
- University of California, San Francisco, Department of Biochemistry and Biophysics, San Francisco, California, United States
| | - Kira E. Poskanzer
- University of California, San Francisco, Department of Biochemistry and Biophysics, San Francisco, California, United States
- Kavli Institute for Fundamental Neuroscience, San Francisco, California, United States
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24
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Zong W. New solution for fast axial scanning in fluorescence microscopy. LIGHT, SCIENCE & APPLICATIONS 2020; 9:199. [PMID: 33318466 PMCID: PMC7736891 DOI: 10.1038/s41377-020-00442-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
A novel technique based on the remote-focusing concept, using a galvanometer scanner combined with a self-fabricated "step mirror" or "tilted mirror" to transform fast lateral scanning into axial scanning, was reported as a new solution for fast, subcellular, 3D fluorescence imaging.
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Affiliation(s)
- Weijian Zong
- Kavli Institute for Systems Neuroscience and Centre for Neural Computation, Norwegian University of Science and Technology, Trondheim, Norway.
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25
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May MA, Bawart M, Langeslag M, Bernet S, Kress M, Ritsch-Marte M, Jesacher A. High-NA two-photon single cell imaging with remote focusing using a diffractive tunable lens. BIOMEDICAL OPTICS EXPRESS 2020; 11:7183-7191. [PMID: 33408989 PMCID: PMC7747902 DOI: 10.1364/boe.405863] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/20/2020] [Revised: 10/22/2020] [Accepted: 10/25/2020] [Indexed: 06/12/2023]
Abstract
Fast, volumetric structural and functional imaging of cellular and sub-cellular dynamics inside the living brain is one of the most desired capabilities in the neurosciences, but still faces serious challenges. Specifically, while few solutions for rapid 3D scanning exist, it is generally much easier to facilitate fast in-plane scanning than it is to scan axially at high speeds. Remote focusing in which the imaging plane is shifted along the optical axis by a tunable lens while maintaining the position of the sample and objective is a promising approach to increase the axial scan speed, but existing techniques often introduce severe optical aberrations in high-NA imaging systems, eliminating the possibility of diffraction-limited single-cell imaging. Here, we demonstrate near diffraction-limited, volumetric two-photon fluorescence microscopy in which we resolve the deep sub-micron structures of single microglia cells with axial scanning performed using a novel high-NA remote focusing method. Image contrast is maintained to within 7% compared to mechanical sample stepping and the focal volume remains nearly diffraction-limited over an axial range greater than 86 µm.
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Affiliation(s)
- Molly A. May
- Institute of Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
| | - Martin Bawart
- Institute of Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
| | - Michiel Langeslag
- Institute of Physiology, Medical University of Innsbruck, Schöpfstraße 41, 6020 Innsbruck, Austria
| | - Stefan Bernet
- Institute of Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
| | - Michaela Kress
- Institute of Physiology, Medical University of Innsbruck, Schöpfstraße 41, 6020 Innsbruck, Austria
| | - Monika Ritsch-Marte
- Institute of Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
| | - Alexander Jesacher
- Institute of Biomedical Physics, Medical University of Innsbruck, Müllerstraße 44, 6020 Innsbruck, Austria
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26
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Sapoznik E, Chang BJ, Huh J, Ju RJ, Azarova EV, Pohlkamp T, Welf ES, Broadbent D, Carisey AF, Stehbens SJ, Lee KM, Marín A, Hanker AB, Schmidt JC, Arteaga CL, Yang B, Kobayashi Y, Tata PR, Kruithoff R, Doubrovinski K, Shepherd DP, Millett-Sikking A, York AG, Dean KM, Fiolka RP. A versatile oblique plane microscope for large-scale and high-resolution imaging of subcellular dynamics. eLife 2020; 9:e57681. [PMID: 33179596 PMCID: PMC7707824 DOI: 10.7554/elife.57681] [Citation(s) in RCA: 92] [Impact Index Per Article: 23.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2020] [Accepted: 11/09/2020] [Indexed: 12/31/2022] Open
Abstract
We present an oblique plane microscope (OPM) that uses a bespoke glass-tipped tertiary objective to improve the resolution, field of view, and usability over previous variants. Owing to its high numerical aperture optics, this microscope achieves lateral and axial resolutions that are comparable to the square illumination mode of lattice light-sheet microscopy, but in a user friendly and versatile format. Given this performance, we demonstrate high-resolution imaging of clathrin-mediated endocytosis, vimentin, the endoplasmic reticulum, membrane dynamics, and Natural Killer-mediated cytotoxicity. Furthermore, we image biological phenomena that would be otherwise challenging or impossible to perform in a traditional light-sheet microscope geometry, including cell migration through confined spaces within a microfluidic device, subcellular photoactivation of Rac1, diffusion of cytoplasmic rheological tracers at a volumetric rate of 14 Hz, and large field of view imaging of neurons, developing embryos, and centimeter-scale tissue sections.
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Affiliation(s)
- Etai Sapoznik
- Department of Cell Biology, University of Texas Southwestern Medical CenterDallasUnited States
- Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical CenterDallasUnited States
| | - Bo-Jui Chang
- Department of Cell Biology, University of Texas Southwestern Medical CenterDallasUnited States
| | - Jaewon Huh
- Department of Cell Biology, University of Texas Southwestern Medical CenterDallasUnited States
- Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical CenterDallasUnited States
| | - Robert J Ju
- Institute for Molecular Bioscience, University of QueenslandQueenslandAustralia
| | - Evgenia V Azarova
- Department of Cell Biology, University of Texas Southwestern Medical CenterDallasUnited States
| | - Theresa Pohlkamp
- Department of Molecular Genetics, University of Texas Southwestern Medical CenterDallasUnited States
| | - Erik S Welf
- Department of Cell Biology, University of Texas Southwestern Medical CenterDallasUnited States
- Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical CenterDallasUnited States
| | - David Broadbent
- Institute for Quantitative Health Sciences and Engineering, Michigan State UniversityEast LansingUnited States
| | - Alexandre F Carisey
- William T. Shearer Center for Human Immunobiology, Baylor College of Medicine and Texas Children’s HospitalHoustonUnited States
| | - Samantha J Stehbens
- Institute for Molecular Bioscience, University of QueenslandQueenslandAustralia
| | - Kyung-Min Lee
- Harold C. Simmons Comprehensive Cancer Center and the Department of Internal Medicine, University of Texas Southwestern Medical CenterDallasUnited States
| | - Arnaldo Marín
- Harold C. Simmons Comprehensive Cancer Center and the Department of Internal Medicine, University of Texas Southwestern Medical CenterDallasUnited States
- Department of Basic and Clinical Oncology, Faculty of Medicine, University of ChileSantiagoChile
| | - Ariella B Hanker
- Harold C. Simmons Comprehensive Cancer Center and the Department of Internal Medicine, University of Texas Southwestern Medical CenterDallasUnited States
| | - Jens C Schmidt
- Institute for Quantitative Health Sciences and Engineering, Michigan State UniversityEast LansingUnited States
- Department of Obstetrics, Gynecology, and Reproductive Biology, Michigan State UniversityEast LansingUnited States
| | - Carlos L Arteaga
- Harold C. Simmons Comprehensive Cancer Center and the Department of Internal Medicine, University of Texas Southwestern Medical CenterDallasUnited States
| | - Bin Yang
- Chan Zuckerberg BiohubSan FranciscoUnited States
| | - Yoshihiko Kobayashi
- Department of Cell Biology, Duke University School of MedicineDurhamUnited States
| | | | - Rory Kruithoff
- Center for Biological Physics and Department of Physics, Arizona State UniversityTempeUnited States
| | - Konstantin Doubrovinski
- Department of Cell Biology, University of Texas Southwestern Medical CenterDallasUnited States
- Cecil H. and Ida Green Comprehensive Center for Molecular, Computational and Systems Biology, University of Texas Southwestern Medical CenterDallasUnited States
| | - Douglas P Shepherd
- Center for Biological Physics and Department of Physics, Arizona State UniversityTempeUnited States
| | | | - Andrew G York
- Calico Life Sciences LLCSouth San FranciscoUnited States
| | - Kevin M Dean
- Department of Cell Biology, University of Texas Southwestern Medical CenterDallasUnited States
| | - Reto P Fiolka
- Department of Cell Biology, University of Texas Southwestern Medical CenterDallasUnited States
- Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical CenterDallasUnited States
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27
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Jiang H, Wang C, Wei B, Gan W, Cai D, Cui M. Long-range remote focusing by image-plane aberration correction. OPTICS EXPRESS 2020; 28:34008-34014. [PMID: 33182878 PMCID: PMC7679183 DOI: 10.1364/oe.409225] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2020] [Revised: 10/02/2020] [Accepted: 10/14/2020] [Indexed: 06/11/2023]
Abstract
Laser scanning plays an important role in a broad range of applications. Toward 3D aberration-free scanning, a remote focusing technique has been developed for high-speed imaging applications. However, the implementation of remote focusing often suffers from a limited axial scan range as a result of unknown aberration. Through simple analysis, we show that the sample-to-image path length conservation is crucially important to the remote focusing performance. To enhance the axial scan range, we propose and demonstrate an image-plane aberration correction method. Using a static correction, we can effectively improve the focus quality over a large defocusing range. Experimentally, we achieved ∼three times greater defocusing range than that of conventional methods. This technique can broadly benefit the implementations of high-speed large-volume 3D imaging.
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Affiliation(s)
- Hehai Jiang
- Bindley Bioscience Center, Purdue University, West Lafayette, IN 47907, USA
- School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, USA
| | - Chenmao Wang
- Bindley Bioscience Center, Purdue University, West Lafayette, IN 47907, USA
- School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, USA
| | - Bowen Wei
- Bindley Bioscience Center, Purdue University, West Lafayette, IN 47907, USA
- School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, USA
| | - Wenbiao Gan
- Skirball Institute, Department of Neuroscience and Physiology, Department of Anesthesiology, New York University School of Medicine, New York, NY 10016, USA
| | - Dawen Cai
- Department of Cell and Development Biology, University of Michigan, Ann Arbor, MI 48109, USA
| | - Meng Cui
- Bindley Bioscience Center, Purdue University, West Lafayette, IN 47907, USA
- School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, USA
- Department of Biology, Purdue University, West Lafayette, IN 47907, USA
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28
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Deguchi T, Bianchini P, Palazzolo G, Oneto M, Diaspro A, Duocastella M. Volumetric Lissajous confocal microscopy with tunable spatiotemporal resolution. BIOMEDICAL OPTICS EXPRESS 2020; 11:6293-6310. [PMID: 33282491 PMCID: PMC7687945 DOI: 10.1364/boe.400777] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/23/2020] [Revised: 10/06/2020] [Accepted: 10/06/2020] [Indexed: 05/29/2023]
Abstract
Dynamic biological systems present challenges to existing three-dimensional (3D) optical microscopes because of their continuous temporal and spatial changes. Most techniques are rigid in adapting the acquisition parameters over time, as in confocal microscopy, where a laser beam is sequentially scanned at a predefined spatial sampling rate and pixel dwell time. Such lack of tunability forces a user to provide scan parameters, which may not be optimal, based on the best assumption before an acquisition starts. Here, we developed volumetric Lissajous confocal microscopy to achieve unsurpassed 3D scanning speed with a tunable sampling rate. The system combines an acoustic liquid lens for continuous axial focus translation with a resonant scanning mirror. Accordingly, the excitation beam follows a dynamic Lissajous trajectory enabling sub-millisecond acquisitions of image series containing 3D information at a sub-Nyquist sampling rate. By temporal accumulation and/or advanced interpolation algorithms, the volumetric imaging rate is selectable using a post-processing step at the desired spatiotemporal resolution for events of interest. We demonstrate multicolor and calcium imaging over volumes of tens of cubic microns with 3D acquisition speeds of 30 Hz and frame rates up to 5 kHz.
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Affiliation(s)
- Takahiro Deguchi
- Nanoscopy & NIC@IIT, Center for Human Technologies, Istituto Italiano di Tecnologia, via E. Melen 83B, 16152 Genoa, Italy
| | - Paolo Bianchini
- Nanoscopy & NIC@IIT, Center for Human Technologies, Istituto Italiano di Tecnologia, via E. Melen 83B, 16152 Genoa, Italy
| | - Gemma Palazzolo
- Enhanced Regenerative Medicine, Istituto Italiano di Tecnologia, via Morego 30, 16163 Genoa, Italy
| | - Michele Oneto
- Nanoscopy & NIC@IIT, Center for Human Technologies, Istituto Italiano di Tecnologia, via E. Melen 83B, 16152 Genoa, Italy
| | - Alberto Diaspro
- Nanoscopy & NIC@IIT, Center for Human Technologies, Istituto Italiano di Tecnologia, via E. Melen 83B, 16152 Genoa, Italy
- Dipartimento di Fisica, Universita di Genova, Via Dodecaneso 33, 16146, Genoa, Italy
| | - Martí Duocastella
- Nanoscopy & NIC@IIT, Center for Human Technologies, Istituto Italiano di Tecnologia, via E. Melen 83B, 16152 Genoa, Italy
- Departament de Física Aplicada, Universitat de Barcelona, C/Marti i Franques 1, 08028 Barcelona, Spain
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29
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Lin P, Ni H, Li H, Vickers NA, Tan Y, Gong R, Bifano T, Cheng JX. Volumetric chemical imaging in vivo by a remote-focusing stimulated Raman scattering microscope. OPTICS EXPRESS 2020; 28:30210-30221. [PMID: 33114904 PMCID: PMC7679187 DOI: 10.1364/oe.404869] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/15/2023]
Abstract
Operable under ambient light and providing chemical selectivity, stimulated Raman scattering (SRS) microscopy opens a new window for imaging molecular events on a human subject, such as filtration of topical drugs through the skin. A typical approach for volumetric SRS imaging is through piezo scanning of an objective lens, which often disturbs the sample and offers a low axial scan rate. To address these challenges, we have developed a deformable mirror-based remote-focusing SRS microscope, which not only enables high-quality volumetric chemical imaging without mechanical scanning of the objective but also corrects the system aberrations simultaneously. Using the remote-focusing SRS microscope, we performed volumetric chemical imaging of living cells and captured in real time the dynamic diffusion of topical chemicals into human sweat pores.
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Affiliation(s)
- Peng Lin
- Department of Electrical and Computer Engineering, Boston University, 8 St. Mary’s St., Boston, MA 02215, USA
- These authors contributed equally
| | - Hongli Ni
- Department of Electrical and Computer Engineering, Boston University, 8 St. Mary’s St., Boston, MA 02215, USA
- These authors contributed equally
| | - Huate Li
- Department of Mechanical Engineering, Boston University, 110 Cummington Mall, Boston, MA 02215, USA
| | - Nicholas A. Vickers
- Department of Mechanical Engineering, Boston University, 110 Cummington Mall, Boston, MA 02215, USA
| | - Yuying Tan
- Department of Biomedical Engineering, Boston University, 44 Cummington Mall, Boston Boston, MA 02215, USA
| | - Ruyi Gong
- Department of Electrical and Computer Engineering, Boston University, 8 St. Mary’s St., Boston, MA 02215, USA
- School of Optical and Electronic Information, Huazhong University of Science and Technology, Luoyu Road 1037, Wuhan 430074, China
| | - Thomas Bifano
- Department of Mechanical Engineering, Boston University, 110 Cummington Mall, Boston, MA 02215, USA
- Photonics Center, Boston University, 8 St. Mary’s St, Boston, MA 02215, USA
| | - Ji-Xin Cheng
- Department of Electrical and Computer Engineering, Boston University, 8 St. Mary’s St., Boston, MA 02215, USA
- Department of Mechanical Engineering, Boston University, 110 Cummington Mall, Boston, MA 02215, USA
- Department of Biomedical Engineering, Boston University, 44 Cummington Mall, Boston Boston, MA 02215, USA
- Photonics Center, Boston University, 8 St. Mary’s St, Boston, MA 02215, USA
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30
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Wang Y, Li H, Hu Q, Cheng X, Chen R, Lv X, Zeng S. Aberration-corrected three-dimensional non-inertial scanning for femtosecond lasers. OPTICS EXPRESS 2020; 28:29904-29917. [PMID: 33114879 DOI: 10.1364/oe.405532] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/18/2020] [Accepted: 09/14/2020] [Indexed: 06/11/2023]
Abstract
Large aberrations are induced by non-collimated light when the convergence or divergence of the incident beam on the back-pupil plane of the objective lens is adjusted for 3D non-inertial scanning. These aberrations significantly degrade the focus quality and decrease the peak intensity of the femtosecond laser focal spot. Here, we describe an aberration-corrected 3D non-inertial scanning method for femtosecond lasers based on a digital micromirror device (DMD) that is used for both beam scanning and aberration correction. An imaging setup is used to detect the focal spot in the 3D space, and an iterative optimization algorithm is used to optimize the focal spot. We demonstrate the application of our proposed approach in two-photon imaging. With correction for the 200-µm out-of-focal plane, the optical axial resolution improves from 7.67 to 3.25 µm, and the intensity of the fluorescence signal exhibits an almost fivefold improvement when a 40× objective lens is used. This aberration-corrected 3D non-inertial scanning method for femtosecond lasers offers a new approach for a variety of potential applications, including nonlinear optical imaging, microfabrication, and optical storage.
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31
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Bawart M, May MA, Öttl T, Roider C, Bernet S, Schmidt M, Ritsch-Marte M, Jesacher A. Diffractive tunable lens for remote focusing in high-NA optical systems. OPTICS EXPRESS 2020; 28:26336-26347. [PMID: 32906907 DOI: 10.1364/oe.400784] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/24/2020] [Accepted: 08/15/2020] [Indexed: 06/11/2023]
Abstract
Remote focusing means to translate the focus position of an imaging system along the optical axis without moving the objective lens. The concept gains increasing importance as it allows for quick 3D focus steering in scanning microscopes, leaves the sample region unperturbed and is compatible with conjugated adaptive optics. Here we present a novel remote focusing approach that can be used in conjunction with high numerical aperture optics. Our method is based on a pair of diffractive elements, which jointly act as a tunable auxiliary lens. By changing the mutual rotation angle between the two elements, we demonstrate an axial translation of the focal spot produced by a NA = 0.95 air objective (corresponding to NA = 1.44 for an oil immersion lens) over more than 140 µm with largely maintained focus quality. We experimentally show that for the task of focus shifting, the wavefront produced by the high-NA design is superior to those produced by a parabolic lens design or a regular achromatic lens doublet.
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32
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Cheng Z, Jiang H, Gan W, Cui M. Pupil plane actuated remote focusing for rapid focal depth control. OPTICS EXPRESS 2020; 28:26407-26413. [PMID: 32906913 PMCID: PMC7679197 DOI: 10.1364/oe.402787] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Revised: 08/06/2020] [Accepted: 08/09/2020] [Indexed: 06/11/2023]
Abstract
Laser scanning is widely employed in imaging and material processing. Common laser scanners are often fast for 2D transverse scanning. Rapid focal depth control is highly desired in many applications. Although remote focusing has been developed to achieve fast focal depth control, the implementation is limited by the laser damage to the actuator near laser focus. Here, we present a new method named pupil plane actuated remote focusing, which enables sub-millisecond response time while avoiding laser damage. We demonstrate its application by implementing a dual-plane two-photon laser scanning fluorescence microscope for in vivo recording of calcium transient of neurons in mouse neocortex.
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Affiliation(s)
- Zongyue Cheng
- Bindley Bioscience Center, Purdue University, West Lafayette, IN 47907, USA
- Skirball Institute, Department of Neuroscience and Physiology, Department of Anesthesiology, New York University School of Medicine, New York, NY 10016, USA
| | - Hehai Jiang
- Bindley Bioscience Center, Purdue University, West Lafayette, IN 47907, USA
- School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, USA
| | - Wenbiao Gan
- Skirball Institute, Department of Neuroscience and Physiology, Department of Anesthesiology, New York University School of Medicine, New York, NY 10016, USA
| | - Meng Cui
- Bindley Bioscience Center, Purdue University, West Lafayette, IN 47907, USA
- School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, USA
- Department of Biology, Purdue University, West Lafayette, IN 47907, USA
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33
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Schuetzenberger A, Borst A. Seeing Natural Images through the Eye of a Fly with Remote Focusing Two-Photon Microscopy. iScience 2020; 23:101170. [PMID: 32502966 PMCID: PMC7270611 DOI: 10.1016/j.isci.2020.101170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2020] [Revised: 04/02/2020] [Accepted: 05/12/2020] [Indexed: 11/30/2022] Open
Abstract
Visual systems of many animals, including the fruit fly Drosophila, represent the surrounding space as 2D maps, formed by populations of neurons. Advanced genetic tools make the fly visual system especially well accessible. However, in typical in vivo preparations for two-photon calcium imaging, relatively few neurons can be recorded at the same time. Here, we present an extension to a conventional two-photon microscope, based on remote focusing, which enables real-time rotation of the imaging plane, and thus flexible alignment to cellular structures, without resolution or speed trade-off. We simultaneously record from over 100 neighboring cells spanning the 2D retinotopic map. We characterize its representation of moving natural images, which we find is comparable to noise predictions. Our method increases throughput 10-fold and allows us to visualize a significant fraction of the fly's visual field. Furthermore, our system can be applied in general for a more flexible investigation of neural circuits.
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Affiliation(s)
- Anna Schuetzenberger
- Department Circuits - Computation - Models, Max-Planck-Institute of Neurobiology, 82152 Planegg, Germany; Graduate School of Systemic Neurosciences, Ludwig-Maximilians-Universität, 82152 Planegg, Germany.
| | - Alexander Borst
- Department Circuits - Computation - Models, Max-Planck-Institute of Neurobiology, 82152 Planegg, Germany; Graduate School of Systemic Neurosciences, Ludwig-Maximilians-Universität, 82152 Planegg, Germany.
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34
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Lee IB, Moon HM, Park JS, Zambochova K, Hong SC, Cho M. Three-dimensional interferometric scattering microscopy via remote focusing technique. OPTICS LETTERS 2020; 45:2628-2631. [PMID: 32356833 DOI: 10.1364/ol.386172] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2019] [Accepted: 03/24/2020] [Indexed: 06/11/2023]
Abstract
Interferometric scattering (iSCAT) microscopy enables us to track nm-sized objects with high spatial and temporal resolutions and permits label-free imaging of biomolecules. Its superb sensitivity, however, comes at a cost by several downsides, such as slow three-dimensional imaging and limited vertical tracking. Here, we propose a new method, Remote Focusing-iSCAT (RF-iSCAT) microscopy, to visualize a volume specimen by imaging sections at different depths without translation of either the objective lens or sample stage. We demonstrate the principle of RF-iSCAT by determining the z-position of submicrometer beads by translating the reference mirror instead. RF-iSCAT features an unprecedentedly long range of vertical tracking and permits fast but vibration-free vertical scanning. We anticipate that RF-iSCAT would enhance the utility of iSCAT for dynamics study.
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35
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Straub BB, Lah DC, Schmidt H, Roth M, Gilson L, Butt HJ, Auernhammer GK. Versatile high-speed confocal microscopy using a single laser beam. THE REVIEW OF SCIENTIFIC INSTRUMENTS 2020; 91:033706. [PMID: 32259986 DOI: 10.1063/1.5122311] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/30/2019] [Accepted: 02/15/2020] [Indexed: 06/11/2023]
Abstract
We present a new flexible high speed laser scanning confocal microscope and its extension by an astigmatism particle tracking velocimetry (APTV) device. Many standard confocal microscopes use either a single laser beam to scan the sample at a relatively low overall frame rate or many laser beams to simultaneously scan the sample and achieve a high overall frame rate. The single-laser-beam confocal microscope often uses a point detector to acquire the image. To achieve high overall frame rates, we use, next to the standard 2D probe scanning unit, a second 2D scan unit projecting the image directly onto a 2D CCD-sensor (re-scan configuration). Using only a single laser beam eliminates crosstalk and leads to an imaging quality that is independent of the frame rate with a lateral resolution of 0.235 µm. The design described here is suitable for a high frame rate, i.e., for frame rates well above the video rate (full frame) up to a line rate of 32 kHz. The dwell time of the laser focus on any spot in the sample (122 ns) is significantly shorter than those in standard confocal microscopes (in the order of milli- or microseconds). This short dwell time reduces phototoxicity and bleaching of fluorescent molecules. The new design opens up further flexibility and facilitates coupling to other optical methods. The setup can easily be extended by an APTV device to measure three dimensional dynamics while being able to show high resolution confocal structures. Thus, one can use the high resolution confocal information synchronized with an APTV dataset.
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Affiliation(s)
- Benedikt B Straub
- Max Planck Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany
| | - David C Lah
- Max Planck Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany
| | - Henrik Schmidt
- Max Planck Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany
| | - Marcel Roth
- Max Planck Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany
| | - Laurent Gilson
- Max Planck Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany
| | - Hans-Jürgen Butt
- Max Planck Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany
| | - Günter K Auernhammer
- Max Planck Institute for Polymer Research, Ackermannweg 10, D-55128 Mainz, Germany
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36
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Chakraborty T, Chen B, Daetwyler S, Chang BJ, Vanderpoorten O, Sapoznik E, Kaminski CF, Knowles TPJ, Dean KM, Fiolka R. Converting lateral scanning into axial focusing to speed up three-dimensional microscopy. LIGHT, SCIENCE & APPLICATIONS 2020; 9:165. [PMID: 33024553 PMCID: PMC7501866 DOI: 10.1038/s41377-020-00401-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/18/2020] [Revised: 08/25/2020] [Accepted: 09/02/2020] [Indexed: 05/04/2023]
Abstract
In optical microscopy, the slow axial scanning rate of the objective or the sample has traditionally limited the speed of volumetric imaging. Recently, by conjugating either a movable mirror to the image plane in a remote-focusing geometry or an electrically tuneable lens (ETL) to the back focal plane, rapid axial scanning has been achieved. However, mechanical actuation of a mirror limits the axial scanning rate (usually only 10-100 Hz for piezoelectric or voice coil-based actuators), while ETLs introduce spherical and higher-order aberrations that prevent high-resolution imaging. In an effort to overcome these limitations, we introduce a novel optical design that transforms a lateral-scan motion into a spherical aberration-free axial scan that can be used for high-resolution imaging. Using a galvanometric mirror, we scan a laser beam laterally in a remote-focusing arm, which is then back-reflected from different heights of a mirror in the image space. We characterize the optical performance of this remote-focusing technique and use it to accelerate axially swept light-sheet microscopy by an order of magnitude, allowing the quantification of rapid vesicular dynamics in three dimensions. We also demonstrate resonant remote focusing at 12 kHz with a two-photon raster-scanning microscope, which allows rapid imaging of brain tissues and zebrafish cardiac dynamics with diffraction-limited resolution.
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Affiliation(s)
- Tonmoy Chakraborty
- Department of Cell Biology, UT Southwestern Medical Center, Dallas, TX USA
- Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM USA
| | - Bingying Chen
- Department of Cell Biology, UT Southwestern Medical Center, Dallas, TX USA
| | - Stephan Daetwyler
- Department of Cell Biology, UT Southwestern Medical Center, Dallas, TX USA
| | - Bo-Jui Chang
- Department of Cell Biology, UT Southwestern Medical Center, Dallas, TX USA
| | - Oliver Vanderpoorten
- Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, CB3 0AS UK
| | - Etai Sapoznik
- Department of Cell Biology, UT Southwestern Medical Center, Dallas, TX USA
| | - Clemens F. Kaminski
- Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, CB3 0AS UK
| | - Tuomas P. J. Knowles
- Department of Chemistry, University of Cambridge, Lensfield Road, Cambridge, CB2 1EW UK
| | - Kevin M. Dean
- Department of Cell Biology, UT Southwestern Medical Center, Dallas, TX USA
| | - Reto Fiolka
- Department of Cell Biology, UT Southwestern Medical Center, Dallas, TX USA
- Lyda Hill Department of Bioinformatics, UT Southwestern Medical Center, Dallas, TX USA
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37
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An adaptive excitation source for high-speed multiphoton microscopy. Nat Methods 2019; 17:163-166. [PMID: 31792434 PMCID: PMC7004891 DOI: 10.1038/s41592-019-0663-9] [Citation(s) in RCA: 52] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2018] [Accepted: 10/24/2019] [Indexed: 11/25/2022]
Abstract
Optical imaging at high spatial and temporal resolution is important to understand brain function. We demonstrate an adaptive femtosecond excitation source that only illuminates the region of interest. We show that the source reduces the power requirement for two- or three-photon imaging of brain activity in awake mice by more than 30 times. The adaptive excitation source represents a new direction in the development of high speed imaging systems.
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38
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Lecoq J, Orlova N, Grewe BF. Wide. Fast. Deep: Recent Advances in Multiphoton Microscopy of In Vivo Neuronal Activity. J Neurosci 2019; 39:9042-9052. [PMID: 31578235 PMCID: PMC6855689 DOI: 10.1523/jneurosci.1527-18.2019] [Citation(s) in RCA: 60] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2019] [Revised: 09/27/2019] [Accepted: 09/27/2019] [Indexed: 01/04/2023] Open
Abstract
Multiphoton microscopy (MPM) has emerged as one of the most powerful and widespread technologies to monitor the activity of neuronal networks in awake, behaving animals over long periods of time. MPM development spanned across decades and crucially depended on the concurrent improvement of calcium indicators that report neuronal activity as well as surgical protocols, head fixation approaches, and innovations in optics and microscopy technology. Here we review the last decade of MPM development and highlight how in vivo imaging has matured and diversified, making it now possible to concurrently monitor thousands of neurons across connected brain areas or, alternatively, small local networks with sampling rates in the kilohertz range. This review includes different laser scanning approaches, such as multibeam technologies as well as recent developments to image deeper into neuronal tissues using new, long-wavelength laser sources. As future development will critically depend on our ability to resolve and discriminate individual neuronal spikes, we will also describe a simple framework that allows performing quantitative comparisons between the reviewed MPM instruments. Finally, we provide our own opinion on how the most recent MPM developments can be leveraged at scale to enable the next generation of discoveries in brain function.
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Affiliation(s)
- Jérôme Lecoq
- Allen Institute for Brain Science, Seattle 98109, Washington,
| | - Natalia Orlova
- Allen Institute for Brain Science, Seattle 98109, Washington
| | - Benjamin F Grewe
- Institute of Neuroinformatics, UZH and ETH Zurich, Zurich 8057, Switzerland
- Department of Electrical Engineering and Information Technology, ETH Zurich, Zurich 8092, Switzerland, and
- Faculty of Sciences, University of Zurich, Zurich 8057, Switzerland
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39
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Huang C, Tai CY, Yang KP, Chang WK, Hsu KJ, Hsiao CC, Wu SC, Lin YY, Chiang AS, Chu SW. All-Optical Volumetric Physiology for Connectomics in Dense Neuronal Structures. iScience 2019; 22:133-146. [PMID: 31765994 PMCID: PMC6883334 DOI: 10.1016/j.isci.2019.11.011] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Revised: 09/19/2019] [Accepted: 11/04/2019] [Indexed: 01/04/2023] Open
Abstract
All-optical physiology (AOP) manipulates and reports neuronal activities with light, allowing for interrogation of neuronal functional connections with high spatiotemporal resolution. However, contemporary high-speed AOP platforms are limited to single-depth or discrete multi-plane recordings that are not suitable for studying functional connections among densely packed small neurons, such as neurons in Drosophila brains. Here, we constructed a 3D AOP platform by incorporating single-photon point stimulation and two-photon high-speed volumetric recordings with a tunable acoustic gradient-index (TAG) lens. We demonstrated the platform effectiveness by studying the anterior visual pathway (AVP) of Drosophila. We achieved functional observation of spatiotemporal coding and the strengths of calcium-sensitive connections between anterior optic tubercle (AOTU) sub-compartments and >70 tightly assembled 2-μm bulb (BU) microglomeruli in 3D coordinates with a single trial. Our work aids the establishment of in vivo 3D functional connectomes in neuron-dense brain areas. All-optical volumetric physiology = precise stimulation + fast volumetric recording Precise single-photon point stimulation among genetically defined neurons 3D two-photon imaging by an acoustic gradient-index lens for dense neural structures Observation of 3D functional connectivity in Drosophila anterior visual pathway
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Affiliation(s)
- Chiao Huang
- Department of Physics, National Taiwan University, 1, Sec 4, Roosevelt Road, Taipei 10617, Taiwan
| | - Chu-Yi Tai
- Institute of Biotechnology, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan
| | - Kai-Ping Yang
- Department of Physics, National Taiwan University, 1, Sec 4, Roosevelt Road, Taipei 10617, Taiwan
| | - Wei-Kun Chang
- Brain Research Center, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan
| | - Kuo-Jen Hsu
- Department of Physics, National Taiwan University, 1, Sec 4, Roosevelt Road, Taipei 10617, Taiwan; Brain Research Center, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan
| | - Ching-Chun Hsiao
- Department of Engineering and System Science, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan
| | - Shun-Chi Wu
- Department of Engineering and System Science, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan
| | - Yen-Yin Lin
- Brain Research Center, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan.
| | - Ann-Shyn Chiang
- Institute of Biotechnology, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan; Brain Research Center, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan; Institute of Systems Neuroscience, National Tsing Hua University, 101, Sec 2, Guangfu Road, Hsinchu 30013, Taiwan; Department of Biomedical Science and Environmental Biology, Kaohsiung Medical University, Kaohsiung 80780, Taiwan; Graduate Institute of Clinical Medical Science, China Medical University, Taichung 40402, Taiwan; Institute of Molecular and Genomic Medicine, National Health Research Institutes, Zhunan, Miaoli 35053, Taiwan; Kavli Institute for Brain and Mind, University of California, San Diego, CA 92161, USA.
| | - Shi-Wei Chu
- Department of Physics, National Taiwan University, 1, Sec 4, Roosevelt Road, Taipei 10617, Taiwan; Molecular Imaging Center, National Taiwan University, 1, Sec 4, Roosevelt Road, Taipei 10617, Taiwan.
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40
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Takasaki KT, Tsyboulski D, Waters J. Dual-plane 3-photon microscopy with remote focusing. BIOMEDICAL OPTICS EXPRESS 2019; 10:5585-5599. [PMID: 31799032 PMCID: PMC6865092 DOI: 10.1364/boe.10.005585] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2019] [Revised: 09/06/2019] [Accepted: 09/27/2019] [Indexed: 05/04/2023]
Abstract
3-photon excitation enables in vivo fluorescence microscopy deep in densely labeled and highly scattering samples. To date, 3-photon excitation has been restricted to scanning a single focus, limiting the speed of volume acquisition. Here, for the first time to our knowledge, we implemented and characterized dual-plane 3-photon microscopy with temporal multiplexing and remote focusing, and performed simultaneous in vivo calcium imaging of two planes beyond 600 µm deep in the cortex of a pan-excitatory GCaMP6s transgenic mouse with a per-plane framerate of 7 Hz and an effective 2 MHz laser repetition rate. This method is a straightforward and generalizable modification to single-focus 3PE systems, doubling the rate of volume (column) imaging with off-the-shelf components and minimal technical constraints.
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Affiliation(s)
- Kevin T. Takasaki
- Allen Institute for Brain Science, 615 Westlake Ave N, Seattle, WA 98109, USA
| | - Dmitri Tsyboulski
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA 20147, USA
| | - Jack Waters
- Allen Institute for Brain Science, 615 Westlake Ave N, Seattle, WA 98109, USA
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41
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Lawton PF, Buckley C, Saunter CD, Wilson C, Corbett AD, Salter PS, McCarron JG, Girkin JM. Multi-plane remote refocusing epifluorescence microscopy to image dynamic Ca 2 + events. BIOMEDICAL OPTICS EXPRESS 2019; 10:5611-5624. [PMID: 31799034 PMCID: PMC6865095 DOI: 10.1364/boe.10.005611] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2019] [Revised: 09/12/2019] [Accepted: 09/12/2019] [Indexed: 05/26/2023]
Abstract
Rapid imaging of multiple focal planes without sample movement may be achieved through remote refocusing, where imaging is carried out in a plane conjugate to the sample plane. The technique is ideally suited to studying the endothelial and smooth muscle cell layers of blood vessels. These are intrinsically linked through rapid communication and must be separately imaged at a sufficiently high frame rate in order to understand this biologically crucial interaction. We have designed and implemented an epifluoresence-based remote refocussing imaging system that can image each layer at up to 20fps using different dyes and excitation light for each layer, without the requirement for optically sectioning microscopy. A novel triggering system is used to activate the appropriate laser and image acquisition at each plane of interest. Using this method, we are able to achieve axial plane separations down to 15 μ m, with a mean lateral stability of ≤ 0.32 μ m displacement using a 60x, 1.4NA imaging objective and a 60x, 0.7NA reimaging objective. The system allows us to image and quantify endothelial cell activity and smooth muscle cell activity at a high framerate with excellent lateral and good axial resolution without requiring complex beam scanning confocal microscopes, delivering a cost effective solution for imaging two planes rapidly. We have successfully imaged and analysed Ca 2 + activity of the endothelial cell layer independently of the smooth muscle layer for several minutes.
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Affiliation(s)
- Penelope F. Lawton
- Department of Physics, Durham University, South Road, Durham, DH1 3LE, UK
| | - Charlotte Buckley
- Strathclyde Institute of Pharmacy & Biomedical Sciences, University of Strathclyde, 161 Cathedral Street, Glasgow, G4 0RE, UK
| | - Chris D. Saunter
- Department of Physics, Durham University, South Road, Durham, DH1 3LE, UK
| | - Calum Wilson
- Strathclyde Institute of Pharmacy & Biomedical Sciences, University of Strathclyde, 161 Cathedral Street, Glasgow, G4 0RE, UK
| | - Alexander D. Corbett
- Department of Physics, University of Exeter, North Park Road, Exeter, EX4 4QL, UK
| | - Patrick S. Salter
- Department of Engineering Science, University of Oxford, Parks Road, Oxford OX1 3PJ, UK
| | - John G. McCarron
- Strathclyde Institute of Pharmacy & Biomedical Sciences, University of Strathclyde, 161 Cathedral Street, Glasgow, G4 0RE, UK
| | - John M. Girkin
- Department of Physics, Durham University, South Road, Durham, DH1 3LE, UK
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42
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Chakraborty T, Driscoll MK, Jeffery E, Murphy MM, Roudot P, Chang BJ, Vora S, Wong WM, Nielson CD, Zhang H, Zhemkov V, Hiremath C, De La Cruz ED, Yi Y, Bezprozvanny I, Zhao H, Tomer R, Heintzmann R, Meeks JP, Marciano DK, Morrison SJ, Danuser G, Dean KM, Fiolka R. Light-sheet microscopy of cleared tissues with isotropic, subcellular resolution. Nat Methods 2019; 16:1109-1113. [PMID: 31673159 PMCID: PMC6924633 DOI: 10.1038/s41592-019-0615-4] [Citation(s) in RCA: 90] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2019] [Accepted: 09/17/2019] [Indexed: 12/15/2022]
Abstract
We present cleared tissue Axially Swept Light-Sheet Microscopy (ctASLM), which enables isotropic, subcellular resolution, high optical sectioning capability, and large field of view imaging over a broad range of immersion media. ctASLM can image live, expanded, and both aqueous and organic chemically cleared tissue preparations. Depending on the optical configuration, ctASLM provides up to 260 nm axial resolution, an improvement over confocal and other reported cleared tissue light-sheet microscopes by a factor 3–10. We image millimeter-scale tissues with subcellular 3D resolution, which enabled us to automatically detect with computer vision multicellular tissue architectures, individual cells, synaptic spines, and rare cell-cell interactions.
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Affiliation(s)
- Tonmoy Chakraborty
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Meghan K Driscoll
- Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Elise Jeffery
- Children's Research Institute, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Malea M Murphy
- Children's Research Institute, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Philippe Roudot
- Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Bo-Jui Chang
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Saumya Vora
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Wen Mai Wong
- Department of Neuroscience, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Department of Neurology and Neurotherapeutics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Cara D Nielson
- Department of Neuroscience, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Department of Neurology and Neurotherapeutics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Hua Zhang
- Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Vladimir Zhemkov
- Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Chitkale Hiremath
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Department of Internal Medicine, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | | | - Yating Yi
- Department of Restorative Sciences, Texas A&M University, College Station, TX, USA
| | - Ilya Bezprozvanny
- Department of Physiology, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Hu Zhao
- Department of Restorative Sciences, Texas A&M University, College Station, TX, USA
| | - Raju Tomer
- Department of Biological Sciences, Columbia University, New York, NY, USA.,NeuroTechnology Center, Columbia University, New York, NY, USA.,Data Science Institute, Columbia University, New York, NY, USA
| | - Rainer Heintzmann
- Leibniz Institute of Photonic Technology, Jena, Germany.,Institute of Physical Chemistry and Abbe Center of Photonics, Friedrich Schiller University, Jena, Germany
| | - Julian P Meeks
- Department of Neuroscience, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Department of Neurology and Neurotherapeutics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Denise K Marciano
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Department of Internal Medicine, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Sean J Morrison
- Children's Research Institute, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Department of Pediatrics, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, Dallas, Texas, USA
| | - Gaudenz Danuser
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Kevin M Dean
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA.
| | - Reto Fiolka
- Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX, USA. .,Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical Center, Dallas, TX, USA.
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43
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Kerlin A, Mohar B, Flickinger D, MacLennan BJ, Dean MB, Davis C, Spruston N, Svoboda K. Functional clustering of dendritic activity during decision-making. eLife 2019; 8:46966. [PMID: 31663507 PMCID: PMC6821494 DOI: 10.7554/elife.46966] [Citation(s) in RCA: 74] [Impact Index Per Article: 14.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2019] [Accepted: 09/26/2019] [Indexed: 01/08/2023] Open
Abstract
The active properties of dendrites can support local nonlinear operations, but previous imaging and electrophysiological measurements have produced conflicting views regarding the prevalence and selectivity of local nonlinearities in vivo. We imaged calcium signals in pyramidal cell dendrites in the motor cortex of mice performing a tactile decision task. A custom microscope allowed us to image the soma and up to 300 μm of contiguous dendrite at 15 Hz, while resolving individual spines. New analysis methods were used to estimate the frequency and spatial scales of activity in dendritic branches and spines. The majority of dendritic calcium transients were coincident with global events. However, task-associated calcium signals in dendrites and spines were compartmentalized by dendritic branching and clustered within branches over approximately 10 μm. Diverse behavior-related signals were intermingled and distributed throughout the dendritic arbor, potentially supporting a large learning capacity in individual neurons.
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Affiliation(s)
- Aaron Kerlin
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
| | - Boaz Mohar
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
| | - Daniel Flickinger
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
| | - Bryan J MacLennan
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
| | - Matthew B Dean
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
| | - Courtney Davis
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
| | - Nelson Spruston
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
| | - Karel Svoboda
- Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, United States
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44
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Zhang Y, Zhou T, Hu X, Li X, Xie H, Fang L, Kong L, Dai Q. Overcoming tissue scattering in wide-field two-photon imaging by extended detection and computational reconstruction. OPTICS EXPRESS 2019; 27:20117-20132. [PMID: 31510112 DOI: 10.1364/oe.27.020117] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2019] [Accepted: 06/21/2019] [Indexed: 06/10/2023]
Abstract
Compared to point-scanning multiphoton microscopy, line-scanning temporal focusing microscopy (LTFM) is competitive in high imaging speed while maintaining tight axial confinement. However, considering its wide-field detection mode, LTFM suffers from shallow penetration depth as a result of the crosstalk induced by tissue scattering. In contrast to the spatial filtering based on confocal slit detection, here we propose the extended detection LTFM (ED-LTFM), the first wide-field two-photon imaging technique to extract signals from scattered photons and thus effectively extend the imaging depth. By recording a succession of line-shape excited signals in 2D and reconstructing signals under Hessian regularization, we can push the depth limitation of wide-field imaging in scattering tissues. We validate the concept with numerical simulations, and demonstrate the performance of enhanced imaging depth in in vivo imaging of mouse brains.
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45
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Multiplexed temporally focused light shaping through a gradient index lens for precise in-depth optogenetic photostimulation. Sci Rep 2019; 9:7603. [PMID: 31110187 PMCID: PMC6527563 DOI: 10.1038/s41598-019-43933-w] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2018] [Accepted: 04/25/2019] [Indexed: 11/08/2022] Open
Abstract
In the past 10 years, the use of light has become irreplaceable for the optogenetic study and control of neurons and neural circuits. Optical techniques are however limited by scattering and can only see through a depth of few hundreds µm in living tissues. GRIN lens based micro-endoscopes represent a powerful solution to reach deeper regions. In this work we demonstrate that cutting edge optical methods for the precise photostimulation of multiple neurons in three dimensions can be performed through a GRIN lens. By spatio-temporally shaping a laser beam in the two-photon regime we project several tens of spatially confined targets in a volume of at least 100 × 150 × 300 µm3. We then apply such approach to the optogenetic stimulation of multiple neurons simultaneously in vivo in mice. Our work paves the way for an all-optical investigation of neural circuits in previously inaccessible brain areas.
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46
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Han S, Yang W, Yuste R. Two-Color Volumetric Imaging of Neuronal Activity of Cortical Columns. Cell Rep 2019; 27:2229-2240.e4. [PMID: 31091458 PMCID: PMC6582979 DOI: 10.1016/j.celrep.2019.04.075] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Revised: 03/26/2019] [Accepted: 04/17/2019] [Indexed: 01/23/2023] Open
Abstract
To capture the emergent properties of neural circuits, high-speed volumetric imaging of neural activity at cellular resolution is needed. Here, we introduce wavelength multiplexing to perform fast volumetric two-photon imaging of cortical columns (>2,000 neurons in 10 planes at 10 vol/s), using two different calcium indicators, an electrically tunable lens and a spatial light modulator. We image the activity of neuronal populations from layers 2/3 to 5 of primary visual cortex from awake mice, finding a lack of columnar structures in orientation responses and revealing correlations between layers which differ from trial to trial. We also simultaneously image functional correlations between presynaptic layer 1 axons and postsynaptic layer 2/3 neurons. Wavelength multiplexing enhances high-speed volumetric microscopy and can be combined with other optical multiplexing methods to easily boost imaging throughput.
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Affiliation(s)
- Shuting Han
- Neurotechnology Center, Department of Biological Sciences, Columbia University, New York, NY 10027, USA.
| | - Weijian Yang
- Neurotechnology Center, Department of Biological Sciences, Columbia University, New York, NY 10027, USA
| | - Rafael Yuste
- Neurotechnology Center, Department of Biological Sciences, Columbia University, New York, NY 10027, USA
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47
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Weisenburger S, Tejera F, Demas J, Chen B, Manley J, Sparks FT, Martínez Traub F, Daigle T, Zeng H, Losonczy A, Vaziri A. Volumetric Ca 2+ Imaging in the Mouse Brain Using Hybrid Multiplexed Sculpted Light Microscopy. Cell 2019; 177:1050-1066.e14. [PMID: 30982596 DOI: 10.1016/j.cell.2019.03.011] [Citation(s) in RCA: 102] [Impact Index Per Article: 20.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2018] [Revised: 12/19/2018] [Accepted: 03/04/2019] [Indexed: 01/07/2023]
Abstract
Calcium imaging using two-photon scanning microscopy has become an essential tool in neuroscience. However, in its typical implementation, the tradeoffs between fields of view, acquisition speeds, and depth restrictions in scattering brain tissue pose severe limitations. Here, using an integrated systems-wide optimization approach combined with multiple technical innovations, we introduce a new design paradigm for optical microscopy based on maximizing biological information while maintaining the fidelity of obtained neuron signals. Our modular design utilizes hybrid multi-photon acquisition and allows volumetric recording of neuroactivity at single-cell resolution within up to 1 × 1 × 1.22 mm volumes at up to 17 Hz in awake behaving mice. We establish the capabilities and potential of the different configurations of our imaging system at depth and across brain regions by applying it to in vivo recording of up to 12,000 neurons in mouse auditory cortex, posterior parietal cortex, and hippocampus.
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Affiliation(s)
- Siegfried Weisenburger
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
| | - Frank Tejera
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
| | - Jeffrey Demas
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
| | - Brandon Chen
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
| | - Jason Manley
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA
| | - Fraser T Sparks
- Department of Neuroscience, Columbia University, New York, NY, USA; Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | | | - Tanya Daigle
- Allen Institute for Brain Science, Seattle, WA, USA
| | - Hongkui Zeng
- Allen Institute for Brain Science, Seattle, WA, USA
| | - Attila Losonczy
- Department of Neuroscience, Columbia University, New York, NY, USA; The Kavli Institute for Brain Science, Columbia University, New York, NY, USA; Mortimer B. Zuckerman Mind Brain Behavior Institute, Columbia University, New York, NY, USA
| | - Alipasha Vaziri
- Laboratory of Neurotechnology and Biophysics, The Rockefeller University, New York, NY, USA; Research Institute of Molecular Pathology, Vienna, Austria; The Kavli Neural Systems Institute, The Rockefeller University, New York, NY, USA.
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48
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Chong EZ, Panniello M, Barreiros I, Kohl MM, Booth MJ. Quasi-simultaneous multiplane calcium imaging of neuronal circuits. BIOMEDICAL OPTICS EXPRESS 2019; 10:267-282. [PMID: 30775099 PMCID: PMC6363184 DOI: 10.1364/boe.10.000267] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 08/21/2018] [Revised: 11/12/2018] [Accepted: 11/12/2018] [Indexed: 06/09/2023]
Abstract
Two-photon excitation fluorescence microscopy is widely used to study the activity of neuronal circuits. However, the fast imaging is typically constrained to a single lateral plane for a standard microscope design. Given that cortical neuronal networks in a mouse brain are complex three-dimensional structures organised in six histologically defined layers which extend over many hundreds of micrometres, there is a strong demand for microscope systems that can record neuronal signalling in volumes. Henceforth, we developed a quasi-simultaneous multiplane imaging technique combining an acousto-optic deflector and static remote focusing to provide fast imaging of neurons from different axial positions inside the cortical layers without the need for mechanical disturbance of either the objective lens or the specimen. The hardware and the software are easily adaptable to existing two-photon microscopes. Here, we demonstrated that our imaging method can record, at high speed and high image contrast, the calcium dynamics of neurons in two different imaging planes separated axially with the in-focus and the refocused planes 120 µm and 250 µm below the brain surface respectively.
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Affiliation(s)
- Ee Zhuan Chong
- Department of Engineering Science, University of Oxford, Parks Road, OX1 3PJ, UK
| | - Mariangela Panniello
- Department of Physiology, Anatomy and Genetics, University of Oxford, Parks Road, OX1 3PT, UK
| | - Inês Barreiros
- Department of Physiology, Anatomy and Genetics, University of Oxford, Parks Road, OX1 3PT, UK
| | - Michael M Kohl
- Department of Physiology, Anatomy and Genetics, University of Oxford, Parks Road, OX1 3PT, UK
| | - Martin J Booth
- Department of Engineering Science, University of Oxford, Parks Road, OX1 3PJ, UK
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49
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Ronzitti E, Emiliani V, Papagiakoumou E. Methods for Three-Dimensional All-Optical Manipulation of Neural Circuits. Front Cell Neurosci 2018; 12:469. [PMID: 30618626 PMCID: PMC6304748 DOI: 10.3389/fncel.2018.00469] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2018] [Accepted: 11/19/2018] [Indexed: 12/18/2022] Open
Abstract
Optical means for modulating and monitoring neuronal activity, have provided substantial insights to neurophysiology and toward our understanding of how the brain works. Optogenetic actuators, calcium or voltage imaging probes and other molecular tools, combined with advanced microscopies have allowed an "all-optical" readout and modulation of neural circuits. Completion of this remarkable work is evolving toward a three-dimensional (3D) manipulation of neural ensembles at a high spatiotemporal resolution. Recently, original optical methods have been proposed for both activating and monitoring neurons in a 3D space, mainly through optogenetic compounds. Here, we review these methods and anticipate possible combinations among them.
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Affiliation(s)
| | | | - Eirini Papagiakoumou
- Wavefront Engineering Microscopy Group, Photonics Department, Institut de la Vision, Sorbonne Université, Inserm S968, CNRS UMR7210, Paris, France
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50
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Lou K, Wang B, Jee AY, Granick S, Amblard F. Deep line-temporal focusing with high axial resolution and a large field-of-view using intracavity control and incoherent pulse shaping. OPTICS LETTERS 2018; 43:4919-4922. [PMID: 30320783 DOI: 10.1364/ol.43.004919] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Accepted: 09/01/2018] [Indexed: 06/08/2023]
Abstract
Line-temporal focusing has been recognized as an elegant strategy that provides two-photon microscopy with an effective means for fast imaging through parallelization, together with an improved resilience to scattering for deep imaging. However, the axial resolution remains sub-optimal, except when using high NA objectives and a small field-of-view. With the introduction of an intracavity control of the spectral width of the femtosecond laser to adaptively fill the back aperture of the objective lens, line-temporal focusing two-photon microscopy is demonstrated to reach near-diffraction-limited axial resolution with a large back-aperture objective lens, and improved immunity to sample scattering. In addition, a new incoherent flattop beam shaping method is proposed which provides a uniform contrast with little degradation of the axial resolution along the focus line, even deep in the sample. This is demonstrated in large volumetric imaging of mouse lung samples.
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