Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Electron Microscope Tomography and Single-particle Reconstruction01:07

Electron Microscope Tomography and Single-particle Reconstruction

Transmission electron microscopy (TEM) can be used to determine the 3D structure of biological samples with the help of techniques such as electron microscope tomography and single-particle reconstruction. While single-particle reconstruction can examine macromolecules and macromolecular complexes in vitro conditions only, tomography permits the study of cell components or small cells in vivo.
Electron Tomography
Electron tomography can be performed either in TEM or STEM (scanning transmission...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Adam9-deficient retinal pigment epithelium pseudopods maintain photoreceptor outer segment renewal despite subretinal space expansion.

The Journal of clinical investigation·2026
Same author

RPE pseudopods maintain photoreceptor outer segment renewal despite subretinal space expansion in <i>Adam9</i> knockout mice.

bioRxiv : the preprint server for biology·2025
Same author

Specialized scales in <i>Atlides polybe</i> butterfly thermally insulate pheromones.

Optics express·2025
Same author

Deep mapping of the <i>endomembrane system</i> of cerebellar Purkinje neurons.

bioRxiv : the preprint server for biology·2025
Same author

Spatial patterns of hepatocyte glucose flux revealed by stable isotope tracing and multi-scale microscopy.

Nature communications·2025
Same author

Restoring AIBP expression in the retina provides neuroprotection in glaucoma.

Molecular therapy : the journal of the American Society of Gene Therapy·2025

Related Experiment Video

Updated: Jun 18, 2026

Scanning Transmission Electron Microscopy Tomography in Virology: 3D Imaging of High-pressure Frozen, Freeze-substituted Samples
09:17

Scanning Transmission Electron Microscopy Tomography in Virology: 3D Imaging of High-pressure Frozen, Freeze-substituted Samples

Published on: August 6, 2025

Serial reconstruction and montaging from large-field electron microscope tomograms.

Sébastien Phan1, Masako Terada, Albert Lawrence

  • 1National Center For Microscopy and Imaging Research, University of California-San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0608, USA.

Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
|December 8, 2009
PubMed
Summary

Electron microscope tomography bridges the gap between light and electron microscopy for molecular-level cell imaging. This review covers de-warping and reassembling 3D reconstructions from warped microscope sections.

More Related Videos

Visualization of Organelles In Situ by Cryo-STEM Tomography
08:37

Visualization of Organelles In Situ by Cryo-STEM Tomography

Published on: June 23, 2023

Imaging Replicative Domains in Ultrastructurally Preserved Chromatin by Electron Tomography
14:56

Imaging Replicative Domains in Ultrastructurally Preserved Chromatin by Electron Tomography

Published on: May 20, 2022

Related Experiment Videos

Last Updated: Jun 18, 2026

Scanning Transmission Electron Microscopy Tomography in Virology: 3D Imaging of High-pressure Frozen, Freeze-substituted Samples
09:17

Scanning Transmission Electron Microscopy Tomography in Virology: 3D Imaging of High-pressure Frozen, Freeze-substituted Samples

Published on: August 6, 2025

Visualization of Organelles In Situ by Cryo-STEM Tomography
08:37

Visualization of Organelles In Situ by Cryo-STEM Tomography

Published on: June 23, 2023

Imaging Replicative Domains in Ultrastructurally Preserved Chromatin by Electron Tomography
14:56

Imaging Replicative Domains in Ultrastructurally Preserved Chromatin by Electron Tomography

Published on: May 20, 2022

Area of Science:

  • Cellular and Molecular Biology
  • Microscopy Techniques
  • Biophysics

Background:

  • Electron microscope tomography (EMT) provides molecular-level imaging, but a spatial scale gap exists between light and electron microscopy.
  • Bridging this gap requires integrating data from multiple imaging techniques and reconstructions.
  • Warping of thin biological slices during preparation is a significant challenge in multi-scale imaging.

Purpose of the Study:

  • To review methods for correcting geometric distortions (de-warping) in biological specimens for microscopy.
  • To discuss techniques for reassembling multiple 3D reconstructions into larger, cohesive datasets.
  • To present practical data and insights from electron microscopy applications.

Main Methods:

  • Review of existing literature on de-warping algorithms and image registration techniques.
  • Analysis of serial sectioning and montaging strategies for large-scale reconstruction.
  • Experimental data acquisition using electron microscopy and subsequent image processing.

Main Results:

  • Identified and categorized common warping artifacts in electron microscopy samples.
  • Evaluated the effectiveness of various de-warping procedures in restoring geometric accuracy.
  • Demonstrated successful reassembly of multiple tomographic reconstructions into larger cellular structures.

Conclusions:

  • De-warping and reassembly are crucial for accurate multi-scale 3D reconstructions in electron microscopy.
  • Standardized procedures are needed to overcome warping challenges and bridge the spatial scale gap.
  • Accurate reconstruction enables a more comprehensive understanding of cellular architecture and molecular organization.