PUBLICATION
3-dimensional electron microscopic imaging of the zebrafish olfactory bulb and dense reconstruction of neurons
- Authors
- Wanner, A.A., Genoud, C., Friedrich, R.W.
- ID
- ZDB-PUB-161110-14
- Date
- 2016
- Source
- Scientific data 3: 160100 (Journal)
- Registered Authors
- Friedrich, Rainer
- Keywords
- Neural circuits, Olfactory bulb, Scanning electron microscopy
- MeSH Terms
-
- Animals
- Imaging, Three-Dimensional
- Microscopy, Electron, Scanning
- Neurons/cytology
- Neurons/ultrastructure
- Olfactory Bulb/cytology*
- Olfactory Bulb/ultrastructure
- Zebrafish*
- PubMed
- 27824337 Full text @ Sci Data
Citation
Wanner, A.A., Genoud, C., Friedrich, R.W. (2016) 3-dimensional electron microscopic imaging of the zebrafish olfactory bulb and dense reconstruction of neurons. Scientific data. 3:160100.
Abstract
Large-scale reconstructions of neuronal populations are critical for structural analyses of neuronal cell types and circuits. Dense reconstructions of neurons from image data require ultrastructural resolution throughout large volumes, which can be achieved by automated volumetric electron microscopy (EM) techniques. We used serial block face scanning EM (SBEM) and conductive sample embedding to acquire an image stack from an olfactory bulb (OB) of a zebrafish larva at a voxel resolution of 9.25×9.25×25 nm3. Skeletons of 1,022 neurons, 98% of all neurons in the OB, were reconstructed by manual tracing and efficient error correction procedures. An ergonomic software package, PyKNOSSOS, was created in Python for data browsing, neuron tracing, synapse annotation, and visualization. The reconstructions allow for detailed analyses of morphology, projections and subcellular features of different neuron types. The high density of reconstructions enables geometrical and topological analyses of the OB circuitry. Image data can be accessed and viewed through the neurodata web services (http://www.neurodata.io). Raw data and reconstructions can be visualized in PyKNOSSOS.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping