A novel 3D method of locomotor analysis in adult zebrafish: Implications for automated detection of CNS drug-evoked phenotypes

Stewart, Adam; Grieco, Fabrizio; Tegelenbosch, Ruud A.J.; Kyzar, Evan J.; Nguyen, Michael; Kaluyeva, Aleksandra A.; Song, Cai; Noldus, L.P.J.J.; Kalueff, Allan V.

doi:10.1016/j.jneumeth.2015.07.023

Cited by 76 publications

(50 citation statements)

References 71 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…A necessary step toward bringing such benefits to the field of animal behaviour is the formulation of mathematical models that can faithfully reconstruct animal locomotion of individuals53, which in turn better informs collective motion models555657. In the case of zebrafish, a model organism for preclinical studies, a comprehensive catalogue of observed behaviours28 and high-volume datasets from the literature1737383940 make a compelling case for the development of a framework to support in-silico experiments.…”

Section: Discussionmentioning

confidence: 99%

“…In these experiments, zebrafish behaviour is measured in terms of locomotory patterns that are typically scored from labour intensive manual observations and seldom using automated computer tracking. Only recently, technical breakthroughs in automated tracking have enabled the complete reconstruction of zebrafish swimming in 3D1737383940. In-silico experiments may significantly contribute to the design of new test batteries, by enabling the systematic analysis of dependent and independent variables while isolating key experimental factors that may act as confounds during testing.…”

mentioning

confidence: 99%

See 1 more Smart Citation

In-silico experiments of zebrafish behaviour: modeling swimming in three dimensions

Mwaffo

Butail

Porfiri

2017

Sci Rep

View full text Add to dashboard Cite

Zebrafish is fast becoming a species of choice in biomedical research for the investigation of functional and dysfunctional processes coupled with their genetic and pharmacological modulation. As with mammals, experimentation with zebrafish constitutes a complicated ethical issue that calls for the exploration of alternative testing methods to reduce the number of subjects, refine experimental designs, and replace live animals. Inspired by the demonstrated advantages of computational studies in other life science domains, we establish an authentic data-driven modelling framework to simulate zebrafish swimming in three dimensions. The model encapsulates burst-and-coast swimming style, speed modulation, and wall interaction, laying the foundations for in-silico experiments of zebrafish behaviour. Through computational studies, we demonstrate the ability of the model to replicate common ethological observables such as speed and spatial preference, and anticipate experimental observations on the correlation between tank dimensions on zebrafish behaviour. Reaching to other experimental paradigms, our framework is expected to contribute to a reduction in animal use and suffering.

show abstract

Section: Discussionmentioning

confidence: 99%

mentioning

confidence: 99%

In-silico experiments of zebrafish behaviour: modeling swimming in three dimensions

Mwaffo

Butail

Porfiri

2017

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Although 3D motion tracking is significantly more complex than 2D tracking, some semi-automated methods exist (Stewart et al, 2015;Zhu and Weng, 2007), and custom systems can be developed as described here. Greater use of vertical motion analysis in studies of zebrafish motor control would increase ecological validity and may promote new ideas for how descending neurons control spinal circuits and locomotor movement.…”

Section: Implications For Understanding Neural Mechanisms Of Motor Comentioning

confidence: 99%

Three-dimensional motion tracking reveals a diving component to visual and auditory escape swims in zebrafish larvae

Bishop

Spence-Chorman

Gahtan

2016

Journal of Experimental Biology

View full text Add to dashboard Cite

Escape behaviors have been studied in zebrafish by neuroscientists seeking cellular-level descriptions of neural circuits but few studies have examined vertical swimming during escapes. We analyzed three-dimensional swimming paths of zebrafish larvae during visually-evoked and auditory-evoked escapes while the fish were in a cubical tank with equal vertical and lateral range. Visually evoked escapes, elicited by sudden dimming of ambient light, consistently elicited downward spiral swimming (dives) with faster vertical than lateral movement. Auditory taps also elicited rapid escape swimming with equivalent total distance traveled but with significantly less vertical and more lateral movement. Visually evoked dives usually ended with the zebrafish hitting the bottom of the 10 cm 3 tank. Therefore, visually evoked dives were also analyzed in a tubular tank with 50 cm of vertical range, and in most cases larvae reached the bottom of that tank during a 120 s dimming stimulus. Light-evoked spiral diving in zebrafish may be an innate defense reflex against specific predation threats. Since visual and auditory escapes are initially similar but dives persist only during visual escapes, our findings lay the groundwork for studying a type of decision-making within zebrafish sensorimotor circuits.

show abstract

“…In contrast, computational video-tracking technologies can record and analyze movements and optimize observation on multiple behavioral endpoints to reduce internal influence [27]. Moreover, another advantage of using the video-tracking approach is its ability to repetitively store, replay, and analyze recorded videos, instead of observing every behavioral endpoint with only human eyes [28,29].Based on the position of fish, computer-vision tracking can be classified into two-dimensional (2D) and three-dimensional (3D). Even though 2D tracking was feasible to analyze fish behavior,…”

mentioning

confidence: 99%

“…With either commercial or home-made software, two or more cameras were required to capture the movement simultaneously. In addition, to obtain more precise spatial position information, the calibration setting is important to perfectly align the XYZ position of images captured by multiple cameras [29,38]. idTracker is an open source program that is used for collecting motion trajectories by matching the feature on all crossing frames of objects based on appearance analysis [35].…”

mentioning

confidence: 99%

A Simple Setup to Perform 3D Locomotion Tracking in Zebrafish by Using a Single Camera

et al. 2018

View full text Add to dashboard Cite

Generally, the measurement of three-dimensional (3D) swimming behavior in zebrafish relies on commercial software or requires sophisticated scripts, and depends on more than two cameras to capture the video. Here, we establish a simple and economic apparatus to detect 3D locomotion in zebrafish, which involves a single camera capture system that records zebrafish movement in a specially designed water tank with a mirror tilted at 45 degrees. The recorded videos are analyzed using idTracker, while spatial positions are calibrated by ImageJ software and 3D trajectories are plotted by Origin 9.1 software. This easy setting allowed scientists to track 3D swimming behavior of multiple zebrafish with low cost and precise spatial position, showing great potential for fish behavioral research in the future.Keywords: 3D locomotion; behavior; zebrafish; idTracker; ImageJ Zebrafish is well-known as an ideal experimental animal model in biomedical research, especially in the fields of developmental and genetic studies and drug discovery approaches [1][2][3][4]. It has become widely used within the field of pharmaceutical research and toxicology, in which ideally thousands of chemicals can be screened rapidly in vivo for therapeutic and toxic potential that are related to human disease susceptibility and risk [5]. In addition, zebrafish is also an excellent model for behavioral research because of their consistency and the rational refection of their mental and physical changes to new environments, and a comparable neural circuit system with high vertebrate counterparts [6][7][8]. Therefore, zebrafish has emerged as a promising new organism for research on anxiety due to their robust cortisol stress response, behavioral strain differences, and sensitivity to drug treatments or predators as well as their change in alarm pheromones [9][10][11][12]. There are various models commonly used to assess zebrafish behavior, include shoaling test [13][14][15], social preference [16,17], light-dark box [18][19][20], open-field [21][22][23], and novel tank [24,25] models. Among these models, they required accurate, reliable, and reproducible detection of the subject's spatiotemporal location. Previously, the manual quantification of animal behavior may have suffered systematic errors, leading to data misinterpretation [26]. In contrast, computational video-tracking technologies can record and analyze movements and optimize observation on multiple behavioral endpoints to reduce internal influence [27]. Moreover, another advantage of using the video-tracking approach is its ability to repetitively store, replay, and analyze recorded videos, instead of observing every behavioral endpoint with only human eyes [28,29].Based on the position of fish, computer-vision tracking can be classified into two-dimensional (2D) and three-dimensional (3D). Even though 2D tracking was feasible to analyze fish behavior,

show abstract

A novel 3D method of locomotor analysis in adult zebrafish: Implications for automated detection of CNS drug-evoked phenotypes

Cited by 76 publications

References 71 publications

In-silico experiments of zebrafish behaviour: modeling swimming in three dimensions

In-silico experiments of zebrafish behaviour: modeling swimming in three dimensions

Three-dimensional motion tracking reveals a diving component to visual and auditory escape swims in zebrafish larvae

A Simple Setup to Perform 3D Locomotion Tracking in Zebrafish by Using a Single Camera

Contact Info

Product

Resources

About