Data and code for the 2020 manuscript "Gaze stabilisation behaviour is anisotropic across visual field locations in zebrafish" by Dehmelt, Meier, Hinz et al.

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Data & code for Dehmelt, Meier, Hinz et al. 2020

This repository contains data and code for our 2020 manuscript "Gaze stabilisation behaviour is anisotropic across visual field locations in zebrafish" by Dehmelt, Meier, Hinz et al. The corresponding author is Aristides B. Arrenberg.

Prerequisites:

Code was developed and tested in MATLAB version 2018a. Both older and newer version should be compatible. Running the code additionally requires the open-source cbrewer package for custom colour maps published by Cynthia Brewer, e.g. via MATLAB Central. The content of this package can be placed anywhere on your MATLAB path. If you do not wish to use the cbrewer package, comment out all lines of code containing "cbrewer", and replace them with your preferred colour maps.

The "data" and "code" folders:

These contain pre-processed data in MAT files, and MATLAB code to reproduce all or parts of Figures 3-6, as well as Figure 3-figure supplement 5. Data file paths are relative to the code file paths, and are hard-coded as such in the M files; so the "data" and "code" folders should always be placed in the same location. If you want to download only some of the subfolders (e.g., only those pertaining to a single figure), make sure to nonetheless place them in two neighbouring folders called "data" and "code".

The "raw data examples" folder:

The repository also contains examples of raw data files (in the "raw data examples" folder), namely tab-separated TXT eye tracking data files. These match the conventions described in our published protocol, "Evoking and tracking zebrafish eye movement in multiple larvae with ZebEyeTrack" by Dehmelt et al., Nature Protocols 2018.

License:

Upon publication of the manuscript in a peer-reviewed journal, all files will be published under Creative Commons license CC BY-NC-SA 4.0 (see the LICENSE file above).

datacite.yml
Title	Gaze stabilisation behaviour is anisotropic across visual field locations in zebrafish
Authors	Dehmelt,Florian Alexander;University of Tübingen, Werner Reichardt Centre for Integrative Neuroscience and Institute of Neurobiology, 72076 Tübingen, Germany;ORCID:0000-0001-6135-4652 Meier,Rebecca;University of Tübingen, Werner Reichardt Centre for Integrative Neuroscience and Institute of Neurobiology, 72076 Tübingen, Germany Hinz,Julian;University of Tübingen, Werner Reichardt Centre for Integrative Neuroscience and Institute of Neurobiology, 72076 Tübingen, Germany Yoshimatsu,Takeshi;Sussex Neuroscience, School of Life Sciences, University of Sussex, UK Simacek,Clara A.;University of Tübingen, Werner Reichardt Centre for Integrative Neuroscience and Institute of Neurobiology, 72076 Tübingen, Germany Wang,Kun;University of Tübingen, Werner Reichardt Centre for Integrative Neuroscience and Institute of Neurobiology, 72076 Tübingen, Germany Baden,Tom;Sussex Neuroscience, School of Life Sciences, University of Sussex, UK Arrenberg,Aristides B.;University of Tübingen, Werner Reichardt Centre for Integrative Neuroscience and Institute of Neurobiology, 72076 Tübingen, Germany;ORCID:0000-0001-8262-7381
Description	Many animals have large visual fields, and sensory circuits may sample those regions of visual space most relevant to behaviours such as gaze stabilisation and hunting. Despite this, relatively small displays are often used in vision neuroscience. To sample stimulus locations across most of the visual field, we built a spherical stimulus arena with 14,848 independently controllable LEDs, measured the optokinetic response gain of immobilised zebrafish larvae, and related behaviour to previously published retinal photoreceptor densities. We measured tuning to steradian stimulus size and spatial frequency, and show it to be independent of visual field position. However, zebrafish react most strongly and consistently to lateral, nearly equatorial stimuli, consistent with previously reported higher spatial densities in the central retina of red, green and blue photoreceptors. Upside-down experiments suggest further extra-retinal processing. Our results demonstrate that motion vision circuits in zebrafish are anisotropic, and preferentially monitor areas with putative behavioural relevance.
License	Creative Commons CC BY-NC-SA 4.0 International (Attribution-NonCommercial-ShareAlike) (https://creativecommons.org/licenses/by-nc-sa/4.0/)
References	Manuscript submitted to peer review [doi:10.xxx/zzzz] (IsSupplementTo) Pre-print on bioRxiv [doi:10.1101/754408 ] (IsSupplementTo)
Funding
Keywords	Neuroscience optokinetic response OKR gain zebrafish zebrafish larvae visual stimulus visual field retinal photoreceptors retina stimulus tuning stimulus size temporal frequency spatial frequency behaviour stimulus hardware spherical asymmetry area centralis yoking
Resource Type	Dataset

README.md

Data & code for Dehmelt, Meier, Hinz et al. 2020

Prerequisites:

The "data" and "code" folders:

The "raw data examples" folder:

License: