Lightsheet localization microscopy enables fast, large-scale, and three-dimensional super-resolution imaging

Recent advances in super-resolution microscopy allow the localization of single molecules within individual cells but not within multiple whole cells due to weak signals from single molecules and slow acquisition process for point accumulation to reconstruct super-resolution images. Here, we report a fast, large-scale, and three-dimensional super-resolution fluorescence microscope based on single-wavelength Bessel lightsheet to selectively illuminate spontaneous blinking fluorophores tagged to the proteins of interest in space. Critical parameters such as labeling density, excitation power, and exposure time were systematically optimized resulting in a maximum imaging speed of 2.7 × 104 µm3 s−1. Fourier ring correlation analysis revealed a reconstructed image with a lateral resolution of ~75 nm through the accumulation of 250 image volumes on immobilized samples within 15 min. Hence, the designed system could open new insights into the discovery of complex biological structures and live 3D localization imaging.Lu, Tang, Liu et al. present a 3D super-resolution fluorescence microscope that uses selective plane illumination and a spontaneously blinking dye for localization-based imaging. They show that their microscope can be used to study complex biological structures.

[1]  Tobias M. P. Hartwich,et al.  Video-rate nanoscopy using sCMOS camera- specific single-molecule localization algorithms , 2013 .

[2]  X. Xie,et al.  Single Molecule Imaging of Transcription Factor Binding to DNA in Live Mammalian Cells , 2013, Nature Methods.

[3]  S. Hell,et al.  Fluorescence nanoscopy by ground-state depletion and single-molecule return , 2008, Nature Methods.

[4]  Jürgen Götz,et al.  Primary support cultures of hippocampal and substantia nigra neurons , 2008, Nature Protocols.

[5]  Ye Fang,et al.  Spatial colocalization and functional link of purinosomes with mitochondria , 2016, Science.

[6]  Wolfram Summerer,et al.  Resolving single-molecule assembled patterns with superresolution blink-microscopy. , 2010, Nano letters.

[7]  Vincent Studer,et al.  3D high- and super-resolution imaging using single-objective SPIM , 2015, Nature Methods.

[8]  Ying S Hu,et al.  Light-sheet Bayesian microscopy enables deep-cell super-resolution imaging of heterochromatin in live human embryonic stem cells , 2013, Optical Nanoscopy.

[9]  Wesley R. Legant,et al.  3D imaging of Sox2 enhancer clusters in embryonic stem cells , 2014, eLife.

[10]  M. Tokunaga,et al.  Highly inclined thin illumination enables clear single-molecule imaging in cells , 2008, Nature Methods.

[11]  R. Tsien,et al.  The Fluorescent Toolbox for Assessing Protein Location and Function , 2006, Science.

[12]  N. Daigle,et al.  Nuclear Pore Scaffold Structure Analyzed by Super-Resolution Microscopy and Particle Averaging , 2013, Science.

[13]  Yi-shuian Huang,et al.  Postsynaptic Y654 dephosphorylation of β‐catenin modulates presynaptic vesicle turnover through increased n‐cadherin‐mediated transsynaptic signaling , 2017, Developmental neurobiology.

[14]  C. James,et al.  Single objective light-sheet microscopy for high-speed whole-cell 3D super-resolution. , 2016, Biomedical optics express.

[15]  Chenglong Xia,et al.  Super-resolution fluorescence imaging of organelles in live cells with photoswitchable membrane probes , 2012, Proceedings of the National Academy of Sciences.

[16]  Suliana Manley,et al.  Quantitative evaluation of software packages for single-molecule localization microscopy , 2015, Nature Methods.

[17]  A. Diaspro,et al.  Live-cell 3D super-resolution imaging in thick biological samples , 2011, Nature Methods.

[18]  Jianyong Tang,et al.  Multilayer Three-dimensional Super-resolution Imaging of Thick Biological Samples , 2008 .

[19]  Guy M. Hagen,et al.  ThunderSTORM: a comprehensive ImageJ plug-in for PALM and STORM data analysis and super-resolution imaging , 2014, Bioinform..

[20]  Jianyong Tang,et al.  Three-Dimensional Super-resolution Imaging of Thick Biological Samples , 2009, Microscopy and Microanalysis.

[21]  Liang Gao,et al.  3D live fluorescence imaging of cellular dynamics using Bessel beam plane illumination microscopy , 2014, Nature Protocols.

[22]  Kazuhiko Kinosita,et al.  Direct observation of the rotation of F1-ATPase , 1997, Nature.

[23]  Petar N Petrov,et al.  3D single-molecule super-resolution microscopy with a tilted light sheet , 2017, Nature Communications.

[24]  A. Mehta,et al.  Myosin-V stepping kinetics: a molecular model for processivity. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[25]  Michael D. Mason,et al.  Ultra-high resolution imaging by fluorescence photoactivation localization microscopy. , 2006, Biophysical journal.

[26]  Mark Bates,et al.  Three-Dimensional Super-Resolution Imaging by Stochastic Optical Reconstruction Microscopy , 2008, Science.

[27]  X. Zhuang,et al.  Fast three-dimensional super-resolution imaging of live cells , 2011, Nature Methods.

[28]  M. Davidson,et al.  Rapid three-dimensional isotropic imaging of living cells using Bessel beam plane illumination , 2011, Nature Methods.

[29]  Suliana Manley,et al.  Live intracellular super-resolution imaging using site-specific stains. , 2013, ACS chemical biology.

[30]  Wesley R. Legant,et al.  Single-Molecule Dynamics of Enhanceosome Assembly in Embryonic Stem Cells , 2014, Cell.

[31]  Dirk P. Kroese,et al.  Kernel density estimation via diffusion , 2010, 1011.2602.

[32]  Dylan T Burnette,et al.  Bleaching/blinking assisted localization microscopy for superresolution imaging using standard fluorescent molecules , 2011, Proceedings of the National Academy of Sciences.

[33]  Citlali Pérez Campos,et al.  High-speed panoramic light-sheet microscopy reveals global endodermal cell dynamics , 2013, Nature Communications.

[34]  Petar N Petrov,et al.  Light sheet approaches for improved precision in 3D localization-based super-resolution imaging in mammalian cells [Invited]. , 2018, Optics express.

[35]  J. Lippincott-Schwartz,et al.  Photoactivatable fluorescent proteins for diffraction-limited and super-resolution imaging. , 2009, Trends in cell biology.

[36]  Jennifer C. Waters,et al.  Accuracy and precision in quantitative fluorescence microscopy , 2009, The Journal of cell biology.

[37]  Jan Ellenberg,et al.  Nuclear pore complexes form immobile networks and have a very low turnover in live mammalian cells , 2001, The Journal of cell biology.

[38]  A. Ting,et al.  Fluorescent probes for super-resolution imaging in living cells , 2008, Nature Reviews Molecular Cell Biology.

[39]  X. Zhuang,et al.  Whole cell 3D STORM reveals interactions between cellular structures with nanometer-scale resolution , 2008, Nature Methods.

[40]  J. Lippincott-Schwartz,et al.  Imaging Intracellular Fluorescent Proteins at Nanometer Resolution , 2006, Science.

[41]  M. Beck,et al.  Fourier ring correlation as a resolution criterion for super-resolution microscopy. , 2013, Journal of structural biology.

[42]  Jan Vogelsang,et al.  Controlling the fluorescence of ordinary oxazine dyes for single-molecule switching and superresolution microscopy , 2009, Proceedings of the National Academy of Sciences.

[43]  S. Hell,et al.  Breaking the diffraction resolution limit by stimulated emission: stimulated-emission-depletion fluorescence microscopy. , 1994, Optics letters.

[44]  M. Gustafsson Surpassing the lateral resolution limit by a factor of two using structured illumination microscopy , 2000, Journal of microscopy.

[45]  Michael W. Davidson,et al.  Video-rate nanoscopy enabled by sCMOS camera-specific single-molecule localization algorithms , 2013, Nature Methods.

[46]  Jaeduck Jang,et al.  Simple super-resolution live-cell imaging based on diffusion-assisted Förster resonance energy transfer , 2013, Scientific Reports.

[47]  Sjoerd Stallinga,et al.  Measuring image resolution in optical nanoscopy , 2013, Nature Methods.

[48]  M. Heilemann,et al.  Direct stochastic optical reconstruction microscopy with standard fluorescent probes , 2011, Nature Protocols.

[49]  Hiroyuki Fujita,et al.  A spontaneously blinking fluorophore based on intramolecular spirocyclization for live-cell super-resolution imaging. , 2014, Nature chemistry.

[50]  Fuyou Li,et al.  Cationic Iridium(III) Complexes with Tunable Emission Color as Phosphorescent Dyes for Live Cell Imaging , 2010 .

[51]  Wesley R. Legant,et al.  High density three-dimensional localization microscopy across large volumes , 2016, Nature Methods.

[52]  M. Heilemann,et al.  Subdiffraction-resolution fluorescence imaging with conventional fluorescent probes. , 2008, Angewandte Chemie.

[53]  Torsten Wittmann,et al.  Fluorescence live cell imaging. , 2014, Methods in cell biology.

[54]  Wesley R. Legant,et al.  Lattice light-sheet microscopy: Imaging molecules to embryos at high spatiotemporal resolution , 2014, Science.

[55]  Alexander Y Katsov,et al.  Fast and sensitive multi-color 3D imaging using aberration-corrected multi-focus microscopy , 2012, Nature Methods.