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Related Concept Videos

Overview of Electron Microscopy01:25

Overview of Electron Microscopy

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The wavelengths of visible light ultimately limit the maximum theoretical resolution of images created by light microscopes. Most light microscopes can only magnify 1000X, and a few can magnify up to 1500X. Electrons, like electromagnetic radiation, can behave like waves, but with wavelengths of 0.005 nm, they produce significantly greater resolution up to 0.05 nm as compared to 500 nm for visible light. An electron microscope (EM) can create a sharp image that is magnified up to 2,000,000X.
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Scanning Electron Microscopy01:07

Scanning Electron Microscopy

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A scanning electron microscope (SEM) is used to study the surface features of a sample by using an electron beam that scans the sample surface in a two-dimensional manner. Typically, areas between ~1 centimeter to 5 micrometers in width can be imaged. SEM can be used to image bacteria, viruses, tissues as well as larger samples like insects. Conventional SEM gives a magnification ranging from 20X to 30,000X and spatial resolution of 50 to 100 nanometers.
Fundamental Principles
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Transmission Electron Microscopy01:15

Transmission Electron Microscopy

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In 1931, physicist Ernst Ruska—building on the idea that magnetic fields can direct an electron beam just as lenses can direct a beam of light in an optical microscope—developed the first prototype of the electron microscope. This development led to the development of the field of electron microscopy. In the transmission electron microscope (TEM), electrons are produced by a hot tungsten element and accelerated by a potential difference in an electron gun, which gives them up to 400...
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Immunogold Electron Microscopy01:20

Immunogold Electron Microscopy

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Immunoelectron microscopy utilizes immunogold labeling of endogenous proteins with specific antibodies to detect and localize these proteins in cells and tissues. The procedure provides insights into the distribution and quantification of protein under different stimulation conditions offering clues about their functions. Conjugating highly electron-dense gold particles with primary or secondary antibodies allow antigen detection on and within cells, with high resolution and specificity.
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Cryo-electron Microscopy01:28

Cryo-electron Microscopy

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Conventional electron microscopy (EM) involves dehydration, fixation, and staining of biological samples, which distorts the native state of biological molecules and results in several artifacts. Also, the high-energy electron beam damages the sample and makes it difficult to obtain high-resolution images. These issues can be addressed using cryo-EM, which uses frozen samples and gentler electron beams. The technique was developed by Jacques Dubochet, Joachim Frank, and Richard Henderson, for...
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Preparation of Samples for Electron Microscopy01:20

Preparation of Samples for Electron Microscopy

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To be visualized by an electron microscope, either transmission or scanning, biological samples need to be fixed (stabilized) so the electron beam does not destroy them and dried thoroughly (desiccated/dehydrated) so the vacuum does not affect them. Fixation needs to be done as quickly as possible because the sample properties will start changing as soon as it is removed from its natural environment. For example, in a tissue sample, the oxygen levels begin decreasing, causing an altered...
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Updated: Feb 6, 2026

Analysis of Brain Mitochondria Using Serial Block-Face Scanning Electron Microscopy
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Analysis of Brain Mitochondria Using Serial Block-Face Scanning Electron Microscopy

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SBEMimage: Versatile Acquisition Control Software for Serial Block-Face Electron Microscopy.

Benjamin Titze1, Christel Genoud1, Rainer W Friedrich1,2

  • 1Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland.

Frontiers in Neural Circuits
|August 16, 2018
PubMed
Summary
This summary is machine-generated.

SBEMimage is a new open-source Python application for serial block-face electron microscopy (SBEM) systems. It enhances large-scale biological ultrastructure imaging with advanced control, quality assurance, and remote operation features.

Keywords:
3ViewSBEMSEMconnectomicsimaging softwaremicrotomeserial block-facevolume EM

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Area of Science:

  • Neuroscience
  • Microscopy
  • Biotechnology

Background:

  • Serial block-face electron microscopy (SBEM) is crucial for high-resolution 3D ultrastructural analysis.
  • Existing SBEM systems often face challenges with large-scale data acquisition, reliability, and remote operation.

Purpose of the Study:

  • To introduce SBEMimage, an open-source Python application designed to streamline and enhance SBEM data acquisition.
  • To improve the reliability, speed, and quality of large-volume biological ultrastructure imaging.

Main Methods:

  • Development of a Python-based application (SBEMimage) with a user-friendly graphical interface for remote operation.
  • Implementation of advanced features including debris detection, autofocus, real-time inspection, and adaptive tile selection.
  • Direct interaction with microscope control software to increase acquisition rates.

Main Results:

  • SBEMimage facilitates complex acquisition tasks for neuronal tissue and other biological ultrastructures.
  • Enhanced monitoring, process control, and error handling improve acquisition reliability and speed.
  • Features like debris detection and adaptive tile selection minimize data loss and optimize imaging of large, arbitrary tissue volumes.

Conclusions:

  • SBEMimage offers a robust, customizable, and extensible solution for advanced SBEM imaging.
  • The application complements existing systems and enables higher acquisition rates, making it adaptable to various SBEM platforms.
  • It empowers researchers with efficient tools for large-scale ultrastructural analysis.