Developing Imaging technologies and software to describe and analyse zebrafish neuroanatomical circuits.


Neurons connect to form circuits; circuits underlie behaviour(s). A small number of bona fide circuits are known and even fewer of these have been demonstrated to drive particular behaviours. Most progress has come from species where we have a complete understanding of the wiring. We are developing zebrafish as a model to explore the neural basis of behaviour. As a first step we must describe the neuroanatomy of the zebrafish brain. To facilitate this we require a standard anatomical framework to compare circuitry and neuronal activity between individuals and stages. The aim of this project is to build this standardised model.

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Ronneberger O, Liu K, Rath M, Rueβ D, Mueller T, Skibbe H, Drayer B, Schmidt T, Filippi A, Nitschke R, Brox T, Burkhardt H, Driever W. (2012) ViBE-Z: a framework for 3D virtual colocalization analysis in zebrafish larval brains. Nature Methods. Jun 17;9(7):735-42


Beretta CA, Dross N, Guiterrez-Triana JA, Ryu S, Carl M. (2012) Habenula circuit development: past, present, and future. Front Neurosci. 2012;6:51. doi: 10.3389/fnins.2012.00051


Okamoto H, Agetsuma M, Aizawa H. (2012) Genetic dissection of the zebrafish habenula, a possible switching board for selection of behavioral strategy to cope with fear and anxiety. Dev Neurobiol. 2012 Mar;72(3):386-94


Bianco IH, Carl M, Russell C, Clarke JD, Wilson SW.(2008) Brain asymmetry is encoded at the level of axon terminal morphology. Neural Dev. 2008 Mar 31;3:9. doi: 10.1186/1749-8104-3-9.

Biological Areas:



Genes, development and STEM approaches to biology