Mitosis pp 261-278 | Cite as

The Segmentation of Microtubules in Electron Tomograms Using Amira

  • Stefanie Redemann
  • Britta Weber
  • Marit Möller
  • Jean-Marc Verbavatz
  • Anthony A. Hyman
  • Daniel Baum
  • Steffen Prohaska
  • Thomas Müller-Reichert
Part of the Methods in Molecular Biology book series (MIMB, volume 1136)


The development of automatic tools for the three-dimensional reconstruction of the microtubule cytoskeleton is crucial for large-scale analysis of mitotic spindles. Recently, we have published a method for the semiautomatic tracing of microtubules based on 3D template matching (Weber et al., J Struct Biol 178:129–138, 2012). Here, we give step-by-step instructions for the automatic tracing of microtubules emanating from centrosomes in the early mitotic Caenorhabditis elegans embryo. This approach, integrated in the visualization and data analysis software Amira, is applicable to tomographic data sets from other model systems.

Key words

Microtubules Segmentation Automatic tracing C. elegans Electron tomography Three-dimensional reconstruction 


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Copyright information

© Springer Science+Business Media New York 2014

Authors and Affiliations

  • Stefanie Redemann
    • 1
  • Britta Weber
    • 2
  • Marit Möller
    • 2
  • Jean-Marc Verbavatz
    • 3
  • Anthony A. Hyman
    • 3
  • Daniel Baum
    • 2
  • Steffen Prohaska
    • 2
  • Thomas Müller-Reichert
    • 1
  1. 1.Experimental Center, Medical Faculty Carl Gustav Carus Technische Universität DresdenDresdenGermany
  2. 2.Department of Visualization and Data AnalysisZuse Institute BerlinBerlinGermany
  3. 3.Max Planck Institute of Molecular Cell Biology and GeneticsDresdenGermany

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