Light-sheet microscopy articles within Nature Communications

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  • Article
    | Open Access

    Studying chemosensory processing desires precise chemical cue presentation, behavioral response monitoring, and large-scale neuronal activity recording. Here, the authors report a fluidics-based toolkit for studying chemosensation in larval zebrafish, and used it to reveal the brainwide neural representations of cadaverine sensing and its binasal input-dependent behavioral avoidance.

    • Samuel K. H. Sy
    • , Danny C. W. Chan
    •  & Ho Ko

  • Article
    | Open Access

    Light sheet microscopes reduce phototoxicity and background while improving imaging speed compared to widefield and confocal microscopes. Here the authors quantify the differences between Gaussian and lattice light sheets using simulations and experimental data in fixed and live cells.

    • Yu Shi
    • , Timothy A. Daugird
    •  & Wesley R. Legant

  • Article
    | Open Access

    Drosophila mesoderm invagination begins with the formation of a furrow. Here they show that a long-range mechanism, powered by actomyosin contraction between the embryo polar caps, works like a ‘cheese-cutter wire’ indenting the tissue surface and folding it into a propagating furrow.

    • Julien Fierling
    • , Alphy John
    •  & Matteo Rauzi

  • Article
    | Open Access

    High resolution imaging of large biological volumes typically takes a long time from hours to days. Here the authors use a Bessel light-sheet approach combined with a content-aware compressed sensing computational pipeline to image whole mouse organs at subcellular resolution in a few minutes.

    • Chunyu Fang
    • , Tingting Yu
    •  & Peng Fei

  • Article
    | Open Access

    Accurate cell detection in dense bacterial biofilms is challenging. Here, the authors report an image analysis pipeline that is able to accurately segment and classify single bacterial cells in 3D fluorescence images: Bacterial Cell Morphometry 3D (BCM3D).

    • Mingxing Zhang
    • , Ji Zhang
    •  & Andreas Gahlmann

  • Article
    | Open Access

    Multi-view SPIM imaging can improve coverage of large samples such as whole embryos, but the procedure increases phototoxicity and involves manual steps that can introduce inconsistencies. Here the authors develop a smart rotation workflow that performs on-the-fly image analysis and identifies optimal set of views to maximize sample coverage.

    • Jiaye He
    •  & Jan Huisken

  • Article
    | Open Access

    Here, using high spatiotemporal resolution light-sheet and fluorescence microscopy, the authors investigate the role of cytoskeletal components on the intracellular transport of Rab11A and influenza virus (IAV) vRNP), and show a preference for Rab11A movement along microtubules that is not essential for IAV vRNP transport.

    • Amar R. Bhagwat
    • , Valerie Le Sage
    •  & Seema S. Lakdawala

  • Article
    | Open Access

    Imaging heart development is challenging due to constant tissue movement and changing physical landmarks. Here the authors present an algorithm capable of maintaining phase-locked imaging throughout a 24 hour timespan, enabling long term timelapse imaging studies of zebrafish heart development, repair and regeneration.

    • Jonathan M. Taylor
    • , Carl J. Nelson
    •  & Martin A. Denvir

  • Article
    | Open Access

    It has been challenging to perform super-resolution imaging in large volumes due to aberrations encountered. Here, the authors combine single-wavelength Bessel lightsheet localization microscopy with tissue clearing techniques and image neurons across the whole brain of adult fruit flies.

    • Li-An Chu
    • , Chieh-Han Lu
    •  & Bi-Chang Chen

  • Article
    | Open Access

    Light sheet microscopy holds potential for imaging dynamics in 3D biological specimens, but is limited by scan speed and camera acquisition rate. Here the authors address both issues by developing speed-optimized Objective Coupled Planar Illumination and parallelizing image acquisition across cameras to achieve 40 Hz imaging over thick samples.

    • Cody J. Greer
    •  & Timothy E. Holy

  • Article
    | Open Access

    Light-sheet microscopes are increasingly used for imaging cleared tissues, but have imposed constraints on sample geometries and protocols. Here the authors present a multi-immersion open-top light-sheet microscope to overcome these limitations and enable high-throughput imaging of samples processed with various clearing protocols.

    • Adam K. Glaser
    • , Nicholas P. Reder
    •  & Jonathan T. C. Liu

  • Article
    | Open Access

    Sample orientation is crucial to ensure optimal image quality in light microscopy. Here the authors enable multi-axis orientation of fixed mouse embryos and shrimp, and live zebrafish embryos and larvae by introducing magnetic beads and rotating the sample with a magnetic field in a microscope.

    • Frederic Berndt
    • , Gopi Shah
    •  & Jan Huisken

  • Article
    | Open Access

    Light-sheet single-molecule 3D super-resolution microscopes can’t image close to a coverslip or may require complex apparatus. Here the authors overcome such limitations using a tilted light sheet strategy with long axial range point spread functions on a standard inverted microscope.

    • Anna-Karin Gustavsson
    • , Petar N. Petrov
    •  & W. E. Moerner

  • Article
    | Open Access

    Optical clearing of tissue has enabled optical imaging deeper into tissue due to significantly reduced light scattering. Here, Ryan et al. tackle first-order defocus, an artefact of a non-uniform refractive index, extending light-sheet microscopy to partially cleared samples.

    • Duncan P. Ryan
    • , Elizabeth A. Gould
    •  & Douglas P. Shepherd

  • Article
    | Open Access

    Recent advances have enabled high-speed three-dimensional optical imaging through the use of fluorescent markers. Here, Chenet al. integrate stimulated Raman imaging into those methods, enabling the label-free and chemically specific volumetric imaging of complex samples.

    • Xueli Chen
    • , Chi Zhang
    •  & Ji-Xin Cheng

  • Article
    | Open Access

    Multiview light-sheet microscopy is a powerful tool for imaging relatively large biological samples over long periods of time, but scattering can limit image quality. Here, the authors combine multiview light-sheet imaging with electronic confocal slit detection to improve image quality, double acquisition speed and streamline data fusion.

    • Gustavo de Medeiros
    • , Nils Norlin
    •  & Lars Hufnagel

  • Article
    | Open Access

    To understand how neuronal networks function, it is important to measure neuronal network activity at the systems level. Here Lemon et al. develop a framework that combines a high-speed multi-view light-sheet microscope, a whole-CNS imaging assay and computational tools to demonstrate simultaneous functional imaging across the entire isolated Drosophilalarval CNS.

    • William C. Lemon
    • , Stefan R. Pulver
    •  & Philipp J. Keller

  • Article
    | Open Access

    Systematic large-scale analysis of embryonic development requires the processing of large amounts of microscopy data. Here Schmid et al.solve this problem by developing a high-speed imaging system that projects zebrafish embryos onto a ‘world map’ in real time, revealing characteristic migration patterns in the early endoderm.

    • Benjamin Schmid
    • , Gopi Shah
    •  & Jan Huisken

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