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  7 Tesla MRI followed by histological 3D reconstructions in whole-brain specimens

Alkemade, A., Pine, K., Kirilina, E., Keuken, M. C., Mulder, M. J., Balesar, R., et al. (2020). 7 Tesla MRI followed by histological 3D reconstructions in whole-brain specimens. Frontiers in Neuroanatomy, 14: 536838. doi:10.3389/fnana.2020.536838.

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Alkemade, Anneke1, Author
Pine, Kerrin2, Author           
Kirilina, Evgeniya2, 3, Author           
Keuken, Max C.1, Author
Mulder, Martijn J.1, 4, Author
Balesar, Rawien1, 5, Author
Groot, Josephine M.1, Author
Bleys, Ronald L. A. W.6, Author
Trampel, Robert2, Author           
Weiskopf, Nikolaus2, Author           
Herrler, Andreas7, Author
Möller, Harald E.8, Author           
Bazin, Pierre-Louis1, 2, 9, Author           
Forstmann, Birte U.1, Author
1Integrative Model-Based Cognitive Neuroscience Research Unit (IMCN), University of Amsterdam, the Netherlands, ou_persistent22              
2Department Neurophysics (Weiskopf), MPI for Human Cognitive and Brain Sciences, Max Planck Society, ou_2205649              
3Neurocomputation and Neuroimaging Unit, Department of Education and Psychology, FU Berlin, Germany, ou_persistent22              
4Department of Experimental Psychology, Utrecht University, the Netherlands, ou_persistent22              
5The Netherlands Institute for Neuroscience, Royal Netherlands Academy of Arts and Sciences, Amsterdam, the Netherlands, ou_persistent22              
6Department of Anatomy, University Medical Center Utrecht, the Netherlands, ou_persistent22              
7Department of Anatomy and Embryology, Maastricht University, the Netherlands, ou_persistent22              
8Methods and Development Unit Nuclear Magnetic Resonance, MPI for Human Cognitive and Brain Sciences, Max Planck Society, ou_634558              
9Department Neurology, MPI for Human Cognitive and Brain Sciences, Max Planck Society, ou_634549              


Free keywords: Post mortem human brain; Ultra-high field MRI; Whole brain imaging; Histology; Formalin fixation
 Abstract: Post mortem magnetic resonance imaging (MRI) studies on the human brain are of great interest for the validation of in vivo MRI. It facilitates a link between functional and anatomical information available from MRI in vivo and neuroanatomical knowledge available from histology/immunocytochemistry. However, linking in vivo and post mortem MRI to microscopy techniques poses substantial challenges. Fixation artifacts and tissue deformation of extracted brains, as well as co registration of 2D histology to 3D MRI volumes complicate direct comparison between modalities. Moreover, post mortem brain tissue does not have the same physical properties as in vivo tissue, and therefore MRI approaches need to be adjusted accordingly. Here, we present a pipeline in which whole-brain human post mortem in situ MRI is combined with subsequent tissue processing of the whole human brain, providing a 3-dimensional reconstruction via blockface imaging. To this end, we adapted tissue processing procedures to allow both post mortem MRI and subsequent histological and immunocytochemical processing. For MRI, tissue was packed in a susceptibility matched solution, tailored to fit the dimensions of the MRI coil. Additionally, MRI sequence parameters were adjusted to accommodate T1 and T2∗ shortening, and scan time was extended, thereby benefiting the signal-to-noise-ratio that can be achieved using extensive averaging without motion artifacts. After MRI, the brain was extracted from the skull and subsequently cut while performing optimized blockface imaging, thereby allowing three-dimensional reconstructions. Tissues were processed for Nissl and silver staining, and co-registered with the blockface images. The combination of these techniques allows direct comparisons across modalities.


Language(s): eng - English
 Dates: 2020-02-212020-09-142020-10-06
 Publication Status: Published online
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Type: -
 Identifiers: DOI: 10.3389/fnana.2020.536838
Other: eCollection 2020
PMID: 33117133
PMC: PMC7574789
 Degree: -



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Project name : -
Grant ID : 616905
Funding program : -
Funding organization : European Research Council
Project name : -
Grant ID : 01EW1711A & B
Funding program : -
Funding organization : Bundesministerium für Bildung und Forschung

Source 1

Title: Frontiers in Neuroanatomy
  Abbreviation : Front Neuroanat
Source Genre: Journal
Publ. Info: Lausanne, Switzerland : Frontiers Research Foundation
Pages: - Volume / Issue: 14 Sequence Number: 536838 Start / End Page: - Identifier: ISSN: 1662-5129
CoNE: https://pure.mpg.de/cone/journals/resource/1662-5129