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Related Concept Videos

Imaging Biological Samples with Optical Microscopy01:18

Imaging Biological Samples with Optical Microscopy

Optical microscopy uses optic principles to provide detailed images of samples. Antonie van Leeuwenhoek designed the first compound optical microscope in the 17th century to visualize blood cells, bacteria, and yeast cells. In 1830, Joseph Jackson Lister created an essentially modern light microscope. The 20th century saw the development of microscopes with enhanced magnification and resolution.
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Confocal microscopy is an advanced microscopic technique. The prime advantage of the confocal microscope over other microscopy techniques is its ability to block the out-of-focus light from the illuminated samples using pinholes. It is widely used with fluorescence optics to obtain high-resolution, sharp contrast images. Unlike optical microscopes, confocal microscopes use a focused beam of light laser to scan the entire sample surface at different z-planes. These microscopes are, therefore,...

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Related Experiment Video

Updated: Jun 30, 2026

Single Plane Illumination Module and Micro-capillary Approach for a Wide-field Microscope
08:53

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μSPIM Toolset: A software platform for selective plane illumination microscopy.

Daniel Saska1, Paul Pichler1, Chen Qian1

  • 1Sussex Neuroscience, University of Sussex, Brighton BN1 9QG, UK.

Journal of Neuroscience Methods
|October 5, 2020
PubMed
Summary
This summary is machine-generated.

We developed the open-source μSPIM Toolset for controlling Selective Plane Illumination Microscopy (SPIM) systems. This software enables high-speed, whole-brain imaging of neural activity in larval zebrafish with single-cell resolution.

Keywords:
acquisitionmicromanagerselective light-sheet microscopyspimtoolboxtoolsetuspimμSPIM

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Area of Science:

  • Neuroscience
  • Microscopy
  • Biotechnology

Background:

  • Selective Plane Illumination Microscopy (SPIM) enables high spatio-temporal resolution volumetric imaging of neural activity in live organisms.
  • Custom SPIM microscope construction faces challenges in hardware component control and synchronization, particularly with scanned laser beams.

Purpose of the Study:

  • To present an open-source software solution, the μSPIM Toolset, for controlling and acquiring data from SPIM microscopes.
  • To offer calibration procedures that optimize SPIM acquisition independently of specific optical designs or hardware.

Main Methods:

  • Developed the μSPIM Toolset, integrating it with the MicroManager platform for SPIM control.
  • Implemented calibration routines to enhance acquisition optimization for diverse SPIM setups.
  • Utilized a scanned laser beam approach for high-frequency imaging.

Main Results:

  • Achieved brain-wide imaging of calcium activity in larval zebrafish at 100 planes per second.
  • Maintained single-cell resolution during high-speed imaging.
  • Demonstrated the utility of μSPIM Toolset for functional neuroimaging.

Conclusions:

  • The μSPIM Toolset offers a flexible and effective solution for controlling SPIM microscopes.
  • This toolset facilitates high-frequency, low-disturbance imaging essential for functional studies.
  • The software enables advanced brain-wide neural activity monitoring in larval zebrafish.