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Related Experiment Video

Updated: May 7, 2025

Isotropic Light-Sheet Microscopy and Automated Cell Lineage Analyses to Catalogue Caenorhabditis elegans Embryogenesis with Subcellular Resolution
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Lineage Tracing by Light-Sheet Microscopy and Computational Reconstruction.

Maria Kalogeridi1,2, Ioannis Liaskas1, John Rallis1,2,3

  • 1Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology Hellas, Heraklion, Crete, Greece.

Methods in Molecular Biology (Clifton, N.J.)
|January 2, 2025
PubMed
Summary
This summary is machine-generated.

Modern live imaging, specifically light-sheet fluorescence microscopy (LSFM), allows detailed cell lineage tracing. This study details using open-source software (MaMuT, Mastodon, TrackMate) for reconstructing cell development in Parhyale hawaiensis embryos.

Keywords:
Cell lineageCrustaceansFijiImageJLight-sheet fluorescence microscopyMaMuΤMastodonParhyale hawaiensisSegmentationTrackMateTracking

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Area of Science:

  • Developmental Biology
  • Microscopy Techniques
  • Bioimaging

Background:

  • Live imaging approaches like light-sheet fluorescence microscopy (LSFM) are crucial for visualizing cellular dynamics in vivo.
  • LSFM offers high spatiotemporal resolution, minimal photodamage, and whole-specimen imaging, significantly advancing lineage tracing.
  • Software tools are essential for converting raw image data into quantifiable cell lineage information.

Purpose of the Study:

  • To describe the preparation of LSFM image datasets for lineage tracing.
  • To demonstrate the application of freely available software platforms (MaMuT, Mastodon, TrackMate) for cell and nuclei tracking.
  • To illustrate lineage reconstruction in the crustacean model Parhyale hawaiensis for developmental and regeneration studies.

Main Methods:

  • Utilizing light-sheet fluorescence microscopy (LSFM) for high-resolution, long-term imaging of fluorescently labeled embryos.
  • Employing Fiji/ImageJ plugins Massive Multiview Tracker (MaMuT), Mastodon, and TrackMate for nuclei or cell segmentation and tracking.
  • Implementing manual, semi-automated, and fully automated pipelines for lineage reconstruction.

Main Results:

  • Successful preparation of LSFM image datasets suitable for detailed lineage analysis.
  • Demonstrated efficacy of MaMuT, Mastodon, and TrackMate in reconstructing cell lineages from LSFM data.
  • Quantitative analysis of cell behaviors and developmental history within the Parhyale hawaiensis model.

Conclusions:

  • Freely available software platforms effectively support small- and large-scale lineage tracing using LSFM data.
  • LSFM combined with advanced tracking software provides a powerful framework for studying development and regeneration.
  • The Parhyale hawaiensis model is well-suited for multi-scale investigations of cellular dynamics using these imaging and analysis techniques.