PUBLICATION
BonZeb: open-source, modular software tools for high-resolution zebrafish tracking and analysis
- Authors
- Guilbeault, N.C., Guerguiev, J., Martin, M., Tate, I., Thiele, T.R.
- ID
- ZDB-PUB-210416-3
- Date
- 2021
- Source
- Scientific Reports 11: 8148 (Journal)
- Registered Authors
- Thiele, Tod
- Keywords
- none
- MeSH Terms
-
- Animals
- Behavior, Animal/physiology
- Calcium/metabolism
- Optogenetics/instrumentation
- Software
- Swimming/physiology*
- Video Recording/instrumentation
- Video Recording/methods*
- Zebrafish/physiology*
- PubMed
- 33854104 Full text @ Sci. Rep.
Citation
Guilbeault, N.C., Guerguiev, J., Martin, M., Tate, I., Thiele, T.R. (2021) BonZeb: open-source, modular software tools for high-resolution zebrafish tracking and analysis. Scientific Reports. 11:8148.
Abstract
We present BonZeb-a suite of modular Bonsai packages which allow high-resolution zebrafish tracking with dynamic visual feedback. Bonsai is an increasingly popular software platform that is accelerating the standardization of experimental protocols within the neurosciences due to its speed, flexibility, and minimal programming overhead. BonZeb can be implemented into novel and existing Bonsai workflows for online behavioral tracking and offline tracking with batch processing. We demonstrate that BonZeb can run a variety of experimental configurations used for gaining insights into the neural mechanisms of zebrafish behavior. BonZeb supports head-fixed closed-loop and free-swimming virtual open-loop assays as well as multi-animal tracking, optogenetic stimulation, and calcium imaging during behavior. The combined performance, ease of use and versatility of BonZeb opens new experimental avenues for researchers seeking high-resolution behavioral tracking of larval zebrafish.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping