DOI: 10.1242/jeb.010272. Automated visual tracking for studying the ontogeny of zebrafish swimming

Automated visual tracking for studying the ontogeny of zebrafish swimming

10.1242/jeb.010272

Crossref journal-article

The Company of Biologists

Journal of Experimental Biology (237)

Abstract

SUMMARY The zebrafish Danio rerio is a widely used model organism in studies of genetics, developmental biology, and recently, biomechanics. In order to quantify changes in swimming during all stages of development, we have developed a visual tracking system that estimates the posture of fish. Our current approach assumes planar motion of the fish, given image sequences taken from a top view. An accurate geometric fish model is automatically designed and fit to the images at each time frame. Our approach works across a range of fish shapes and sizes and is therefore well suited for studying the ontogeny of fish swimming, while also being robust to common environmental occlusions. Our current analysis focuses on measuring the influence of vertebra development on the swimming capabilities of zebrafish. We examine wild-type zebrafish and mutants with stiff vertebrae (stocksteif) and quantify their body kinematics as a function of their development from larvae to adult (mutants made available by the Hubrecht laboratory, The Netherlands). By tracking the fish, we are able to measure the curvature and net acceleration along the body that result from the fish's body wave. Here, we demonstrate the capabilities of the tracking system for the escape response of wild-type zebrafish and stocksteif mutant zebrafish. The response was filmed with a digital high-speed camera at 1500 frames s–1. Our approach enables biomechanists and ethologists to process much larger datasets than possible at present. Our automated tracking scheme can therefore accelerate insight in the swimming behavior of many species of (developing)fish.

Bibliography

Fontaine, E., Lentink, D., Kranenbarg, S., MuÌller, U. K., van Leeuwen, J. L., Barr, A. H., & Burdick, J. W. (2008). Automated visual tracking for studying the ontogeny of zebrafish swimming. Journal of Experimental Biology, 211(8), 1305â1316.

Authors 7

Ebraheem Fontaine (first)
David Lentink (additional)
Sander Kranenbarg (additional)
Ulrike K. Müller (additional)
Johan L. van Leeuwen (additional)
Alan H. Barr (additional)
Joel W. Burdick (additional)

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Dates

Type	When
Created	17 years, 5 months ago (March 29, 2008, 3:04 a.m.)
Deposited	4 years, 4 months ago (April 25, 2021, 9:34 a.m.)
Indexed	1 month, 2 weeks ago (July 22, 2025, 7:14 a.m.)
Issued	17 years, 4 months ago (April 15, 2008)
Published	17 years, 4 months ago (April 15, 2008)
Published Print	17 years, 4 months ago (April 15, 2008)

Funders 0

None

BibTeX

@article{Fontaine_2008, title={Automated visual tracking for studying the ontogeny of zebrafish swimming}, volume={211}, ISSN={0022-0949}, url={http://dx.doi.org/10.1242/jeb.010272}, DOI={10.1242/jeb.010272}, number={8}, journal={Journal of Experimental Biology}, publisher={The Company of Biologists}, author={Fontaine, Ebraheem and Lentink, David and Kranenbarg, Sander and Müller, Ulrike K. and van Leeuwen, Johan L. and Barr, Alan H. and Burdick, Joel W.}, year={2008}, month=apr, pages={1305–1316} }

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