Data-driven stochastic modelling of zebrafish locomotion

Zienkiewicz, Adam; Barton, David A. W.; Porfiri, Maurizio; Bernardo, Mario di

doi:10.1007/s00285-014-0843-2

Cited by 54 publications

(84 citation statements)

References 61 publications

(59 reference statements)

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“…This relationship was estimated from experimental observations which indicated a strong negative correlation between the speed of the fish and the volatility of the turning rate [34]. The smooth random walks constructed after integrating these equations in time have time-averaged speed that approaches μ u and directionally unbiased turning, i.e.…”

Section: Data-driven Stochastic Model Of Individual Zebrafish Locomotionmentioning

confidence: 99%

“…The model used to describe the individual (isolated) swimming dynamics of zebrafish was originally developed in [34]. Similarly to recent efforts on the so-called persistent [8,39] or jump persistent [40] turning walker, the model uses two coupled stochastic differential equations (SDEs) in time t, one for the forward speed U (t), and one for the turning (angular) rate Ω(t)…”

Section: Data-driven Stochastic Model Of Individual Zebrafish Locomotionmentioning

confidence: 99%

“…Building on recent efforts to infer details of the specific interactions among teleost fish [18][19][20][21], we extend the individual zebrafish model formulated in [34] to study their social behaviour in small shoals. Specifically, the model we describe incorporates speed regulation, which is both fundamental to the locomotory patterns of individuals [35,36] and has been recently proposed as a central mechanism for explaining collective behaviour of similar teleosts [17,20,21,37,38].…”

Section: Introductionmentioning

confidence: 99%

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Leadership emergence in a data-driven model of zebrafish shoals with speed modulation

Zienkiewicz

Barton

Porfiri

et al. 2015

Eur. Phys. J. Spec. Top.

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Abstract. Models of collective animal motion can greatly aid in the design and interpretation of behavioural experiments that seek to unravel, isolate, and manipulate the determinants of leader-follower relationships. Here, we develop an initial model of zebrafish social behaviour, which accounts for both speed and angular velocity regulatory interactions among conspecifics. Using this model, we analyse the macroscopic observables of small shoals influenced by an "informed" agent, showing that leaders which actively modulate their speed with respect to their neighbours can entrain and stabilise collective dynamics of the naïve shoal.

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Section: Data-driven Stochastic Model Of Individual Zebrafish Locomotionmentioning

confidence: 99%

Section: Data-driven Stochastic Model Of Individual Zebrafish Locomotionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Leadership emergence in a data-driven model of zebrafish shoals with speed modulation

Zienkiewicz

Barton

Porfiri

et al. 2015

Eur. Phys. J. Spec. Top.

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show abstract

“…We recorded, at 15 frames per second, the position of each fish swimming alone in the tank for 1 h. Thanks to this tracking, we retrieved the trajectory of each fish and computed their speed and acceleration during the entire experiment. An example of a trajectory is given in Figure 6(a) and highlights that the fish were mainly swimming along the walls of the tank, as also shown by Zienkiewicz et al 22 We could also identify three speed patterns of the fish according to their location in the experimental tank. Indeed, their linear speed decreases in the corners of the tank when they change their direction, while the zebrafish swim at a higher speed along the edges of the tank.…”

Section: Zebrafish Locomotion Analysismentioning

confidence: 62%

“…For instance, in a study by Mwaffo et al, 21 fish locomotion is modeled using a jump persistent turning walker model motivated by the sudden and drastic changes in zebrafish locomotion in the form of large deviations in turn rate. Zienkiewicz et al 22 used a stochastic model to reproduce zebrafish locomotion in a confined environment. While these models accurately reproduce the motion of fish, the translation of their mathematical expression in concrete commands for a robot was not validated on a real system.…”

Section: Introductionmentioning

confidence: 99%

Design of a modular robotic system that mimics small fish locomotion and body movements for ethological studies

Bonnet

Cazenille

Séguret

et al. 2017

International Journal of Advanced Robotic Systems

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Robotic animals are nowadays developed for various types of research, such as bioinspired robotics, biomimetics, and animal behavioral studies. The design of these robots poses great challenges as they often have to achieve very high-level performances in terms of locomotion, size, and visual aspect. We developed a robotic system for direct underwater interactions with small fish species. This robotic platform is composed of two subsystems: a miniature wheeled mobile robot that can achieve complex locomotion patterns and a robotic fish lure that is able to beat its soft caudal peduncle to generate fish-like body movements. The two subsystems are coupled with magnets that allow the robotic lure to reach very high speeds and accelerations, thanks to the mobile robot. We used zebrafish (Danio rerio) to model small fish locomotion patterns and construct a controller for the motion of our robotic system. We have demonstrated that the designed system is able to achieve the same types of motion patterns as the zebrafish while mimicking the body movements of the fish. These results define new standards for robotic fish lures and bring to the field of fish-robot interaction a new tool for ethological studies.

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Shoaling with Fish: Using Miniature Robotic Agents to Close the Interaction Loop with Groups of Zebrafish Danio rerio

Bonnet

Mondada

2019

Springer Tracts in Advanced Robotics

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Robotic animals are nowadays developed for various types of research, such as bio-inspired robotics, biomimetics and animal behavior studies. The miniaturization of technologies and the increase in performance of embedded systems allowed engineers to develop more powerful, sophisticated and miniature devices. The case of robotic fish is a typical example of such challenging design: the fish locomotion and body movements are difficult to reproduce and the device has to move autonomously underwater. More specifically, in the case of collective animal behavior research, the robotic device has to interact with animals by generating and exploiting signals relevant for social behavior. Once perceived by the animal society as conspecific, these robots can become powerful tools to study the animal behaviors, as they can at the same time monitor the changes in behavior and influence the collective choices of the animal society. In this work, we present novel robotized tools that can integrate shoals of fish in order to study their collective behaviors. This robotic platform is composed of two subsystems: a miniature wheeled mobile robot that can achieve dynamic movements and multi-robot long-duration experiments, and a robotic fish lure that is able to beat its tail to generate fish-like body movements. The two subsystems are coupled with magnets which allows the wheeled mobile robot to steer the robotic fish lure so that it reaches very high speeds and accelerations while achieving shoaling. An experimental setup to conduct studies on mixed societies of artificial and living fish was designed to facilitate the experiments for biologists. A software framework was also implemented to control the robots in a closed-loop using data extracted from visual tracking that retrieved the position of the robots and the fish. We selected the zebrafish Danio rerio as a model to perform experiments to qualify our system. We used the current state of the art on the zebrafish social behavior to define the specifications of the robots, and we performed stimuli analysis to improve their developments. Bio-inspired controllers were designed based on data extracted from experiments with zebrafish for the robots to mimic the zebrafish locomotion underwater. Experiments involving a robot with a shoal of fish in a constrained environment showed that the locomotion of the robot was one of the main factor to affect the collective behavior of zebrafish. We also shown that the body movements and the biomimetic appearance of the lure could increase its acceptance by fish. Finally, an experiment involving a mixed society of v Abstract fish and robots qualified the robotic system to be integrated among a zebrafish shoal and to be able to influence the collective decisions of the fish. These results are very promising for the field of fish-robot interaction studies, as we showed the effect of the robots in long-duration experiments and repetitively, with the same order of response from the animals.

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Data-driven stochastic modelling of zebrafish locomotion

Cited by 54 publications

References 61 publications

Leadership emergence in a data-driven model of zebrafish shoals with speed modulation

Leadership emergence in a data-driven model of zebrafish shoals with speed modulation

Design of a modular robotic system that mimics small fish locomotion and body movements for ethological studies

Shoaling with Fish: Using Miniature Robotic Agents to Close the Interaction Loop with Groups of Zebrafish Danio rerio

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