Mizutani Laboratory

Dept of Applied Biochemistry, School of Engineering, Tokai University

Home - Movies/3D models - Publications - Schizophrenia AIjump - MCTracejump - RecViewjump - 3D test patterns - Japanese - Sci Rep Connectomics


Our research in collaboration with SPring-8/JASRI and Advanced Photon Source (APS) of Argonne National Laboratory involves a number of studies. We have performed X-ray microtomographic (micro-CT) and nanotomographic (nano-CT) analyses of biological soft tissues, including human, mouse, and fruit fly brains. Cellular and subcellular structures, such as neurons, neurites, and dendritic spines have been visualized at micrometer to nanometer resolution using synchrotron radiation X-ray sources. More details are...

HumanNeurons Psychiatric symptoms of schizophrenia suggest alteration of brain network. However, the physical basis of schizophrenia has not been delineated. We performed nanometer-scale 3D analysis of brain tissues of schizophrenia and control cases and found that neurites of schizophrenia cases are thin and tortuous compared to controls (figure). In this study, we visualized structures of cerebral tissues of the anterior cingulate cortex (Brodmann area BA24) and the superior temporal gyrus (BA22) by using synchrotron radiation nanotomography or nano-CT. Neuronal networks visualized in the 3D images were traced to build their Cartesian coordinate models. The obtained models were used for calculating structural parameters including curvature and torsion of neurites in order to analyze their geometry. Results of the geometric analyses indicated that the neurite curvature is significantly different between individuals and becomes extraordinary in schizophrenia. The mean neurite curvature in schizophrenia was up to 3.9 times higher than that of the control. The differences in the neurite curvature result in differences in the spatial trajectory and hence alter neuronal circuits. The curvature also inversely correlates with neurite thickness that affects the transmission of active potentials. We suggest that the structural differences of neurons between individuals represent their mental personality and hence reflect psychiatric symptoms of schizophrenia. This study is news released from Argonne National Lab and widely mentioned in the news media. It's also featured in the APS highlights. Original papers: Transl.Psychiatry 2019 2021 (ranked top 1 percentile with Altmetrics) YouTube: 3D image - Network. We recently found that brain capillary structures of schizophrenia cases and controls show a correlation with their neuron structures. DOI YouTube

MS_spinaCord Multiple sclerosis is a neurological disorder in which the myelin sheaths of axons are damaged by the immune response. We recently reported a 3D analysis of brains and spinal cords of a mouse model of multiple sclerosis, known as experimental autoimmune encephalomyelitis (EAE). EAE-induced mice were raised with or without administration of fingolimod, which is used in the treatment of multiple sclerosis. Three-dimensional structures of the brain hemispheres and spinal cords of the EAE mice were visualized with synchrotron radiation microtomography. Microtomographic cross sections revealed dilation of capillary vessels and vacuolation in the spinal cord of the EAE mice. Vacuolation was also observed in the cerebellum, suggesting that the neuroinflammatory response progressed in the brain. The vessel networks and vacuolation lesions in the spinal cords were modelled by automatically tracing the three-dimensional image (left). The analysis results indicated that the distribution of vacuolations was not uniform but three-dimensionally localized. The mean vessel diameter showed a linear correlation with the clinical score, indicating that vasodilation is relevant to paralysis severity. We suggest that vasodilation and vacuolation are related with neurological symptoms of multiple sclerosis. DOI arXiv PubMed YouTube

FlyBrain We have also reported a three-dimensional analysis of the brain network of the fruit fly Drosophila melanogaster by synchrotron-radiation nanotomography. A skeletonized wire model of the left half of the brain network was built by tracing the 3D image of the brain network. The obtained models of neuronal processes were classified into groups on the basis of their structures. The model structure indicated that the Drosophila brain is composed of networks with different complexity and extensity depending on the brain regions. Simple networks in the optic lobe should be appropriate for relaying information straightforwardly while intricate and widespread networks mainly in the central brain can integrate information from a number of brain regions. These structures of the reconstructed networks provide a basis for understanding how the Drosophila brain works. An article reviewing this study appeared in MIT Technology Review. DOI PubMed arXiv YouTube

TestPattern Spatial resolution is the fundamental parameter in structural sciences. We developed a method for estimating the spatial resolution of real images from a logarithmic intensity plot in the Fourier domain. The logarithmic intensity plots of test images indicated that the full width at half maximum of a Gaussian point spread function can be estimated from the images themselves. The spatial resolution of imaging X-ray nanotomography using Fresnel zone-plate optics was estimated with this method. A cross section of a test object visualized with the nano-CT indicated that square-wave patterns up to 120-nm pitch were resolved. The logarithmic intensity plot was calculated from a nano-CT cross section of brain tissue. The full width at half maximum of the point spread function estimated from the plot coincided with the resolution determined from the test object. These results indicated that the logarithmic intensity plot in the Fourier domain provides an alternative measure of the spatial resolution without explicitly defining a noise criterion. DOI PubMed arXiv

Recently, our interests have been focused on (1) three-dimensional structural analysis of biological soft tissues, including brain tissues of schizophrenia cases (DOI), and (2) evaluation of the spatial resolution of real sample images.


Selected publications are:
  1. Ryuta Mizutani, Rino Saiga, Yoshiro Yamamoto, Masayuki Uesugi, Akihisa Takeuchi, Kentaro Uesugi, Yasuko Terada, Yoshio Suzuki, Vincent De Andrade, Francesco De Carlo, Susumu Takekoshi, Chie Inomoto, Naoya Nakamura, Youta Torii, Itaru Kushima, Shuji Iritani, Norio Ozaki, Kenichi Oshima, Masanari Itokawa, and Makoto Arai (2021). Structural diverseness of neurons between brain areas and between cases. Transl. Psychiatry 11, 49. DOI pdf
  2. Rino Saiga, Masato Hoshino, Akihisa Takeuchi, Kentaro Uesugi, Katsuko Naitou, Akemi Kamijo, Noboru Kawabe, Masato Ohtsuka, Shunya Takizawa, and Ryuta Mizutani (2019). Synchrotron radiation microtomography of brain hemisphere and spinal cord of a mouse model of multiple sclerosis revealed a correlation between capillary dilation and clinical score. J. Comp. Neurol. 527(13), 2091-2100. [invited] DOI arXiv PubMed
  3. *Ryuta Mizutani, Rino Saiga, Susumu Takekoshi, Chie Inomoto, Naoya Nakamura, Masanari Itokawa, Makoto Arai, Kenichi Oshima, Akihisa Takeuchi, Kentaro Uesugi, Yasuko Terada and Yoshio Suzuki (2016). A method for estimating spatial resolution of real image in the Fourier domain. J. Microscopy 261(1), 57-66. DOI arXiv PubMed
Our other publications are...

Results and resources

Scientific Reports Collection Connectomics

This collection invites original research focused on the mapping of neuronal connections, as well as the development of related tools and methods.
Submission deadline: 31 December 2022.

Movies and skeletonized models (RRID:SCR_016529)

Movies and skeletonized models of human, mouse, and fly brain networks.

MCTracejump (RRID:SCR_016532)

A GUI-based program for neuronal network model building. We use this software to convert 3D images of neurons into the 3D Cartesian coordinates of neurons to analyze the geometry of brain network.

RecViewjump (RRID:SCR_016531)

Reconstruction and image processing of micro-CT and nano-CT data taken at SPring-8 and APS Argonne. On-the-fly CT reconstruction is implemented using CUDA and SIMD assembly code up to AVX2.

Preparation of soft tissue samplesjump

Sample preparation tips for synchrotron radiation experiments.

Test patterns for microtomography and nanotomography

Test patterns for the estimation of spatial resolution of 3D images.

Artificial neural network mimicking schizophreniajump

Neural network layers inspired from our study on brain tissues of schizophrenia cases outperform conventional layers. Over 60% of weight parameters can be eliminated without any changes in training procedures or network configuration. Front Neurorobot 16, 851471, 2022.

Vita of P.I.

Name: Ryuta Mizutani

Mizutani Mizutani attaching a sample on the rotation stage of the 32-ID beamline of APS, Argonne National Lab. If you use human tissue samples, your operating procedure must be approved by the institutional committee beforehand. The procedure may ask you to wear personal protective equipments.

Birth: 1967


1990 B.Sc. (Pharmaceutical Sciences) The University of Tokyo
1992 M.Sc. (Pharm Sci) The University of Tokyo
1995 Ph.D. (Pharm Sci) The University of Tokyo

Research experience:

1992-1993 Affiliate Assistant Professor, International Christian University
1993-1995 Research fellow, the Japan Society for the Promotion of Science
1995-2006 Assistant Professor, the University of Tokyo
2006-2012 Associate Professor, Tokai University
2012- Professor, Tokai University


The Japanese Biochemical Society
Microscopy Society of America
Royal Society of Medicine (UK)


Ryuta Mizutani, Prof., Dr.
Department of Bioengineering
Department of Applied Biochemistry
School of Engineering / Graduate Sch. of Engineering / Grad. Sch. of Science and Technology
Tokai University
Kitakaname 4-1-1, Hiratsuka, Kanagawa 259-1292, Japan
Tel +81 (463) 58-1211
E-mail mizutanilaboratory(at)gmail.com
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