Development of basic technology for spatial genomics of in three-dimensional tissues
Project/Area Number |
18K19419
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Research Category |
Grant-in-Aid for Challenging Research (Exploratory)
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Allocation Type | Multi-year Fund |
Review Section |
Medium-sized Section 48:Biomedical structure and function and related fields
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Research Institution | The University of Tokyo |
Principal Investigator |
Susaki Etsuo 東京大学, 大学院医学系研究科(医学部), 准教授 (10444803)
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Project Period (FY) |
2018-06-29 – 2020-03-31
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Project Status |
Completed (Fiscal Year 2019)
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Budget Amount *help |
¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000)
Fiscal Year 2019: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
Fiscal Year 2018: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
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Keywords | 多階層オミクス / 組織透明化 / 3次元イメージング / 核酸解析 |
Outline of Final Research Achievements |
We tried to develop a technology for spatial genomics to obtain the genome profile of each cell after recording all nuclear positions in the three-dimensional tissue. We have successfully developed an advanced tissue clearing method that covers the whole organ. (Cell Rep 2018). In addition, we elucidated the principle of nuclear stain penetration based on the tissue's physicochemical properties. We finally constructed a uniform nuclear staining protocol for large organ samples. Using a developed gel embedding method of cleared samples, we also successfully imaged the whole organ and acquired the cell nucleus voxel's position using light-sheet microscopes. We summarized these results and submitted them in a paper (Nat Commun, submitted; published after the close of the project).
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Academic Significance and Societal Importance of the Research Achievements |
本研究成果ではこれまで実証例のない空間的ゲノミクス実現に向けた重要な技術課題を克服し、がん、老化、発生等におけるゲノム情報と空間位置情報との関連を紐付けながら組織・臓器の構築や極めて少数の細胞種・細胞状態を同定できる新しい研究スキームの提示が期待できる。また、本研究成果で得られた新しい核染色プロトコルは、これまで解決されていなかった染色剤の浸透原理を解明し、ボトムアップなデザインを実現した。このように組織の物理化学的性質に基づいたプロトコルデザインは、今後の組織学的手法の構築に重要な方向性を示すものになるとともに、3次元病理学の実現による診断確度や客観性向上に大きく貢献するものと期待される。
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Report
(3 results)
Research Products
(36 results)
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[Journal Article] Novel 3D analysis using optical tissue clearing documents the evolution of murine rapidly progressive glomerulonephritis2019
Author(s)
Puelles VG, Fleck D, Ortz L, Papadouri S, Thiago T, Boehner A, van der Wolde JW, Vogt M, Saritas T, Kuppe C, Fuss A, Menzel S, Klinkhammer BM, Mller-Newen G, Heymann F, Decker L, Braun F, Kretz O, Huber TB, Susaki EA, Ueda HR, et al.
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Journal Title
Kidney international
Volume: AOP
Issue: 2
Pages: 505-516
DOI
Related Report
Peer Reviewed / Open Access / Int'l Joint Research
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[Journal Article] Chemical Landscape for Tissue Clearing Based on Hydrophilic Reagents.2018
Author(s)
Tainaka K, Murakami TC, Susaki EA, Shimizu C, Saito R, Takahashi K, Hayashi-Takagi A, Sekiya H, Arima Y, Nojima S, Ikemura M, Ushiku T, Shimizu Y, Murakami M, Tanaka KF, Iino M, Kasai H, Sasaoka T, Kobayashi K, Miyazono K, Morii E, Isa T, Fukayama M, Kakita A, Ueda HR.
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Journal Title
Cell Rep.
Volume: 24
Issue: 8
Pages: 2196-2210
DOI
NAID
Related Report
Peer Reviewed / Open Access / Int'l Joint Research
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