Quantifying Mesoscale Neuroanatomy Using X-Ray Microtomography



Methods for resolving the three-dimensional (3D) microstructure of the brain typically start by thinly slicing and staining the brain, followed by imaging numerous individual sections with visible light photons or electrons. In contrast, X-rays can be used to image thick samples, providing a rapid approach for producing large 3D brain maps without sectioning. Here we demonstrate the use of synchrotron X-ray microtomography (µCT) for producing mesoscale (∼1 µm 3 resolution) brain maps from millimeter-scale volumes of mouse brain. We introduce a pipeline for µCT-based brain mapping that develops and integrates methods for sample preparation, imaging, and automated segmentation of cells, blood vessels, and myelinated axons, in addition to statistical analyses of these brain structures. Our results demonstrate that X-ray tomography achieves rapid quantification of large brain volumes, complementing other brain mapping and connectomics efforts.


@articleDyer_2017 doi: 10.1523/eneuro.0195-17.2017 url: https://doi.org/10.1523/eneuro.0195-17.2017 year: 2017 publisher: Society for Neuroscience volume: 4 number: 5 pages: ENEURO.0195--17.2017 author: Dyer Eva L. and Roncal William Gray and Prasad Judy A. and Fernandes Hugo L. and Gürsoy Doga and De Andrade Vincent and Fezzaa Kamel and Xiao Xianghui and Vogelstein Joshua T. and Jacobsen Chris and Körding Konrad P. and Kasthuri Narayanan title: Quantifying Mesoscale Neuroanatomy Using X-Ray Microtomography journal: eneuro

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