Automated visual tracking for studying the ontogeny of zebrafish swimming
Automated visual tracking for studying the ontogeny of zebrafish swimming
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DOI：
10.1242/jeb.010272
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发表时间：
2008-04-15
影响因子：
2.8
通讯作者：
Burdick, Joel W.
中科院分区：
文献类型：
--
作者：
Fontaine, Ebraheem;Lentink, David;Burdick, Joel W.
斑马鱼是遗传学、发育生物学和生物力学研究中广泛使用的模式生物。为了量化在游泳的各个发展阶段的变化，我们已经开发了一个视觉跟踪系统，估计鱼的姿态。我们目前的方法假设平面运动的鱼，从顶视图拍摄的图像序列。一个精确的几何鱼模型自动设计和适合在每个时间帧的图像。我们的方法适用于一系列鱼类的形状和大小，因此非常适合研究鱼类游泳的个体发育，同时对常见的环境闭塞也很强大。我们目前的分析重点是测量脊椎发育对斑马鱼游泳能力的影响。我们研究野生型斑马鱼和突变体与僵硬的椎骨（stocksteif）和量化他们的身体运动学的功能，他们的发展从幼虫到成人（突变体提供的Hubrecht实验室，荷兰）。通过跟踪鱼，我们能够测量曲率和净加速度沿着身体，从鱼的身体波的结果。在这里，我们展示了野生型斑马鱼和stocksteif突变斑马鱼的逃逸反应的跟踪系统的能力。用高速数码相机以1500帧/秒（-1）的速度拍摄反应。我们的方法使生物力学家和动物行为学家能够处理比目前更大的数据集。因此，我们的自动跟踪计划可以加速洞察许多种类的（发展中）鱼类的游泳行为。
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.