Impact of fixation and paraffin embedding on mouse brain morphology: a synchrotron radiation-based tomography study

Griffin Rodgers; Christine Tanner; Georg Schulz; Alexandra Migga; Timm Weitkamp; Willy Kuo; Mario Scheel; Melissa Osterwalder; Vartan Kurtcuoglu; Bert Müller

doi:10.1117/12.2595144

9 September 2021 Impact of fixation and paraffin embedding on mouse brain morphology: a synchrotron radiation-based tomography study

Griffin Rodgers, Christine Tanner, Georg Schulz, Alexandra Migga, Timm Weitkamp, Willy Kuo, Mario Scheel, Melissa Osterwalder, Vartan Kurtcuoglu, Bert Müller

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Proceedings Volume 11840, Developments in X-Ray Tomography XIII; 118400P (2021) https://doi.org/10.1117/12.2595144
Event: SPIE Optical Engineering + Applications, 2021, San Diego, California, United States

Abstract

Formalin fixation and paraffin embedding of post mortem tissue specimens is widely used for high-resolution neuroimaging with both conventional and X-ray virtual histology. Exchange of embedding solutions generates non-uniform brain shrinkage and changes relative tissue densities. We used synchrotron radiation-based X-ray micro computed tomography to visualize the embedding process for a single mouse brain. Non-rigid registration was employed to determine the volumetric strain fields and to track the X-ray absorption changes of corresponding features. This allows for a correction of the observed microanatomy to improve the anatomical context. Through embedding, the entire brain shrinks to around 40% of its volume in formalin. Shrinkage is non-uniform and varies over anatomical regions and the distance to external surfaces.

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Griffin Rodgers, Christine Tanner, Georg Schulz, Alexandra Migga, Timm Weitkamp, Willy Kuo, Mario Scheel, Melissa Osterwalder, Vartan Kurtcuoglu, and Bert Müller "Impact of fixation and paraffin embedding on mouse brain morphology: a synchrotron radiation-based tomography study", Proc. SPIE 11840, Developments in X-Ray Tomography XIII, 118400P (9 September 2021); https://doi.org/10.1117/12.2595144

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