PUBLICATION
Automated synapse-level reconstruction of neural circuits in the larval zebrafish brain
- Authors
- Svara, F., Förster, D., Kubo, F., Januszewski, M., Dal Maschio, M., Schubert, P.J., Kornfeld, J., Wanner, A.A., Laurell, E., Denk, W., Baier, H.
- ID
- ZDB-PUB-221026-3
- Date
- 2022
- Source
- Nature Methods 19(11): 1357-1366 (Journal)
- Registered Authors
- Baier, Herwig, Kubo, Fumi, Laurell, Eva
- Keywords
- none
- MeSH Terms
-
- Animals
- Brain/ultrastructure
- Larva
- Microscopy, Electron
- Synapses*/ultrastructure
- Zebrafish*
- PubMed
- 36280717 Full text @ Nat. Methods
Citation
Svara, F., Förster, D., Kubo, F., Januszewski, M., Dal Maschio, M., Schubert, P.J., Kornfeld, J., Wanner, A.A., Laurell, E., Denk, W., Baier, H. (2022) Automated synapse-level reconstruction of neural circuits in the larval zebrafish brain. Nature Methods. 19(11):1357-1366.
Abstract
Dense reconstruction of synaptic connectivity requires high-resolution electron microscopy images of entire brains and tools to efficiently trace neuronal wires across the volume. To generate such a resource, we sectioned and imaged a larval zebrafish brain by serial block-face electron microscopy at a voxel size of 14 × 14 × 25 nm3. We segmented the resulting dataset with the flood-filling network algorithm, automated the detection of chemical synapses and validated the results by comparisons to transmission electron microscopic images and light-microscopic reconstructions. Neurons and their connections are stored in the form of a queryable and expandable digital address book. We reconstructed a network of 208 neurons involved in visual motion processing, most of them located in the pretectum, which had been functionally characterized in the same specimen by two-photon calcium imaging. Moreover, we mapped all 407 presynaptic and postsynaptic partners of two superficial interneurons in the tectum. The resource developed here serves as a foundation for synaptic-resolution circuit analyses in the zebrafish nervous system.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping