3D Reconstruction of Zebrafish larvea using VAST

Collaboration with Molecular Cell Biology, IBL, Leiden University

Yuanhao Guo, Wouter J. Veneman, Herman P Spaink, Fons J. Verbeek (2017)
3D Reconstruction and Measurement of Zebrafish Larvea from High-Troughput axial-view in vivo imaging.
BioMedical Optics Express 8(5): 2611-2634

We have modelled 3 stages of zebrafish larvae form axial views generated with our VAST-BioImager.

• Model 1, 3 dpf Zebrafish larvae
• Model 2, 4 dpf Zebrafish larvae
• Model 3, 5 dpf Zebrafish larvae

In order to obtain the models, we have used a Hybrid Segmentation method that we have developed to overcome segmentation errors that result from the application of standard methods. A summary of the method can be seen here.

The animations represents voxel models as they are reconstructed with our methods from profiles obtained from segmentations of axial-views.

The following animations illustrate three different models produces with our reconstruction methods.
The viewer can appreciate the correctness of the reconstruction for each of the larval stages.