A novel method for automated tracking and quantification of adult zebrafish behaviour during anxiety

Nema, Shubham; Hasan, Whidul; Bhargava, Anamika; Bhargava, Yogesh

doi:10.1016/j.jneumeth.2016.07.004

Cited by 46 publications

(27 citation statements)

References 36 publications

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“…However, these programs tend to be expensive, require quite a lot of initial user input and are unable to be modified by users (i.e. are not open source) (Nema et al 2016).…”

Section: Introductionmentioning

confidence: 99%

“…They also tend work with particular experimental laboratory arenas (OpenControl (Aguiar et al 2007)) or home cage set-ups (Hong et al 2015;Koniar et al 2016). Many of these programs have also not been reliably validated against other methods or in other labs (Benjamini et al 2010;Desland et al 2014;Koniar et al 2016), and require coding skills to adapt the code to other set-ups or extract alternative metrics (Nema et al 2016). Ethowatcher (Junior et al 2012) is an open source tracker, that can measure many aspects of animal movement and behaviour, however it still requires a lot of manual intervention during set-up.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

A novel automated rodent tracker (ART), demonstrated in a mouse model of amyotrophic lateral sclerosis

Hewitt

Yap

Hodson-Tole

et al. 2018

Journal of Neuroscience Methods

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“…However, these programs tend to be expensive, require quite a lot of initial user input and are unable to be modified by users (i.e. are not open source) (Nema et al 2016).…”

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

A novel automated rodent tracker (ART), demonstrated in a mouse model of amyotrophic lateral sclerosis

Hewitt

Yap

Hodson-Tole

et al. 2018

Journal of Neuroscience Methods

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show abstract

“…In PDD studies using animal xenograft models, optical-ECT and light sheet microscopy have allowed deep tissue imaging of tumor progression along with the analysis of microvasculature and necrosis studies 29,30. Image analysis software for such in vivo throughput setup has also undergone rapid advances, allowing the quantification of endpoints ranging from ex vivo analysis,31 single-cell behavior in vivo32,33 to behavior of an entire organism 34,35. Much of the available analysis software is open source and is designed to create tailor-made scripts that accommodate new and innovative PDD endpoint assay development and analysis.…”

Section: Technical Advances For Pdd Screeningmentioning

confidence: 99%

Cell and small animal models for phenotypic drug discovery

Szabó

Akusjärvi

Saxena

et al. 2017

DDDT

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The phenotype-based drug discovery (PDD) approach is re-emerging as an alternative platform for drug discovery. This review provides an overview of the various model systems and technical advances in imaging and image analyses that strengthen the PDD platform. In PDD screens, compounds of therapeutic value are identified based on the phenotypic perturbations produced irrespective of target(s) or mechanism of action. In this article, examples of phenotypic changes that can be detected and quantified with relative ease in a cell-based setup are discussed. In addition, a higher order of PDD screening setup using small animal models is also explored. As PDD screens integrate physiology and multiple signaling mechanisms during the screening process, the identified hits have higher biomedical applicability. Taken together, this review highlights the advantages gained by adopting a PDD approach in drug discovery. Such a PDD platform can complement target-based systems that are currently in practice to accelerate drug discovery.

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“…Traditional behavioral phenotyping leveraged the use of a single camera positioned on top or in front of the experimental tank and the subsequent use of behavioral scoring software, in which the phenotype of interest had to be input by a trained observer (Cianca et al 2013;Spinello et al 2013). Albeit extremely productive, this approach was prone to observer bias and has been recently complemented by tracking algorithms capable of automatically coding and scoring zebrafish behavior with limited human supervision (Delcourt et al 2018;Franco-Restrepo et al 2019;Nema et al 2016;Perez-Escudero et al 2014).…”

Section: Introductionmentioning

confidence: 99%

Peer Review #1 of "Comparison between two- and three-dimensional scoring of zebrafish response to psychoactive drugs: identifying when three-dimensional analysis is needed (v0.1)"

2019

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Zebrafish (Danio rerio) have recently emerged as a valuable laboratory species in the field of behavioral pharmacology, where they afford rapid and precise high-throughput drug screening. Although the behavioral repertoire of this species manifests along three dimensions (3D), most of the efforts in behavioral pharmacology rely on 2D projections acquired from a single overhead or front camera. We recently showed that, compared to a 3D scoring approach, 2D analyses could lead to inaccurate claims regarding individual and social behavior of drug-free experimental subjects. Here, we examined whether this conclusion extended to the field of behavioral pharmacology by phenotyping adult zebrafish, acutely exposed to citalopram (30 mg/L, 50 mg/L, and 100 mg/L) or ethanol (0.25%, 0.50%, and 1.00%), in the novel tank diving test over a six-minute experimental session. We observed that both compounds modulated the time course of general locomotion and anxiety-related profiles, the latter being represented by specific behaviors (erratic movements and freezing) and avoidance of anxiety-eliciting areas of the test tank (top half and distance from the side walls). We observed that 2D projections of 3D trajectories (ground truth data) may introduce a source of unwanted variation in zebrafish behavioral phenotyping. Predictably, both 2D views underestimate absolute levels of general locomotion. Additionally, while data obtained from a camera positioned on top of the experimental tank are similar to those obtained from a 3D reconstruction, 2D front view data yield false negative findings.

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A novel method for automated tracking and quantification of adult zebrafish behaviour during anxiety

Cited by 46 publications

References 36 publications

A novel automated rodent tracker (ART), demonstrated in a mouse model of amyotrophic lateral sclerosis

A novel automated rodent tracker (ART), demonstrated in a mouse model of amyotrophic lateral sclerosis

Cell and small animal models for phenotypic drug discovery

Peer Review #1 of "Comparison between two- and three-dimensional scoring of zebrafish response to psychoactive drugs: identifying when three-dimensional analysis is needed (v0.1)"

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