A micro-CT-based method for characterising lesions and locating electrodes in small animal brains Journal Article


Author(s): Masís, Javier; Mankus, David; Wolff, Steffen; Guitchounts, Grigori; Jösch, Maximilian; Cox, David D
Article Title: A micro-CT-based method for characterising lesions and locating electrodes in small animal brains
Affiliation IST Austria
Abstract: Lesion and electrode location verification are traditionally done via histological examination of stained brain slices, a time-consuming procedure that requires manual estimation. Here, we describe a simple, straightforward method for quantifying lesions and locating electrodes in the brain that is less laborious and yields more detailed results. Whole brains are stained with osmium tetroxide, embedded in resin, and imaged with a micro-CT scanner. The scans result in 3D digital volumes of the brains with resolutions and virtual section thicknesses dependent on the sample size (12-15 and 5-6 µm per voxel for rat and zebra finch brains, respectively). Surface and deep lesions can be characterized, and single tetrodes, tetrode arrays, electrolytic lesions, and silicon probes can also be localized. Free and proprietary software allows experimenters to examine the sample volume from any plane and segment the volume manually or automatically. Because this method generates whole brain volume, lesions and electrodes can be quantified to a much higher degree than in current methods, which will help standardize comparisons within and across studies.
Journal Title: Journal of visualized experiments JoVE
Volume: 141
ISSN: 1940-087X
Publisher: NLM  
Date Published: 2018-11-08
DOI: 10.3791/58585
Notes: This work was supported by the Richard and Susan Smith Family Foundation and IARPA (contract #D16PC00002). S.B.E.W. was supported by fellowships from the Human Frontier Science Program (HFSP; LT000514/2014) and the European Molecular Biology Organization (EMBO; ALTF1561-2013). G.G. was supported by the National Science Foundation (NSF) Graduate Research Fellowship Program (GRFP).
Open access: no