A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing

Tatsuya C. Murakami; Tomoyuki Mano; Shu Saikawa; Shuhei A. Horiguchi; Daichi Shigeta; Kousuke Baba; Hiroshi Sekiya; Yoshihiro Shimizu; Kenji F. Tanaka; Hiroshi Kiyonari; Masamitsu Iino; Hideki Mochizuki; Kazuki Tainaka; Hiroki R. Ueda

doi:10.1038/s41593-018-0109-1

A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing

Tatsuya C. Murakami, Tomoyuki Mano, Shu Saikawa, Shuhei A. Horiguchi, Daichi Shigeta, Kousuke Baba, Hiroshi Sekiya, Yoshihiro Shimizu, Kenji F. Tanaka, Hiroshi Kiyonari, Masamitsu Iino, Hideki Mochizuki, Kazuki Tainaka, Hiroki R. Ueda^*

^*この論文の責任著者

脳神経内科（神経内科）

研究成果: ジャーナルへの寄稿 › 学術論文 › 査読

219 被引用数 (Scopus)

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A three-dimensional single-cell-resolution mammalian brain atlas will accelerate systems-level identification and analysis of cellular circuits underlying various brain functions. However, its construction requires efficient subcellular-resolution imaging throughout the entire brain. To address this challenge, we developed a fluorescent-protein-compatible, whole-organ clearing and homogeneous expansion protocol based on an aqueous chemical solution (CUBIC-X). The expanded, well-cleared brain enabled us to construct a point-based mouse brain atlas with single-cell annotation (CUBIC-Atlas). CUBIC-Atlas reflects inhomogeneous whole-brain development, revealing a significant decrease in the cerebral visual and somatosensory cortical areas during postnatal development. Probabilistic activity mapping of pharmacologically stimulated Arc-dVenus reporter mouse brains onto CUBIC-Atlas revealed the existence of distinct functional structures in the hippocampal dentate gyrus. CUBIC-Atlas is shareable by an open-source web-based viewer, providing a new platform for whole-brain cell profiling.

本文言語	英語
ページ（範囲）	625-637
ページ数	13
ジャーナル	Nature Neuroscience
巻	21
号	4
DOI	https://doi.org/10.1038/s41593-018-0109-1
出版ステータス	出版済み - 2018/04/01

ASJC Scopus 主題領域

神経科学一般

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10.1038/s41593-018-0109-1

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Murakami, T. C., Mano, T., Saikawa, S., Horiguchi, S. A., Shigeta, D., Baba, K., Sekiya, H., Shimizu, Y., Tanaka, K. F., Kiyonari, H., Iino, M., Mochizuki, H., Tainaka, K., & Ueda, H. R. (2018). A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing. Nature Neuroscience, 21(4), 625-637. https://doi.org/10.1038/s41593-018-0109-1

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title = "A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing",

abstract = "A three-dimensional single-cell-resolution mammalian brain atlas will accelerate systems-level identification and analysis of cellular circuits underlying various brain functions. However, its construction requires efficient subcellular-resolution imaging throughout the entire brain. To address this challenge, we developed a fluorescent-protein-compatible, whole-organ clearing and homogeneous expansion protocol based on an aqueous chemical solution (CUBIC-X). The expanded, well-cleared brain enabled us to construct a point-based mouse brain atlas with single-cell annotation (CUBIC-Atlas). CUBIC-Atlas reflects inhomogeneous whole-brain development, revealing a significant decrease in the cerebral visual and somatosensory cortical areas during postnatal development. Probabilistic activity mapping of pharmacologically stimulated Arc-dVenus reporter mouse brains onto CUBIC-Atlas revealed the existence of distinct functional structures in the hippocampal dentate gyrus. CUBIC-Atlas is shareable by an open-source web-based viewer, providing a new platform for whole-brain cell profiling.",

author = "Murakami, {Tatsuya C.} and Tomoyuki Mano and Shu Saikawa and Horiguchi, {Shuhei A.} and Daichi Shigeta and Kousuke Baba and Hiroshi Sekiya and Yoshihiro Shimizu and Tanaka, {Kenji F.} and Hiroshi Kiyonari and Masamitsu Iino and Hideki Mochizuki and Kazuki Tainaka and Ueda, {Hiroki R.}",

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doi = "10.1038/s41593-018-0109-1",

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Murakami, TC, Mano, T, Saikawa, S, Horiguchi, SA, Shigeta, D, Baba, K, Sekiya, H, Shimizu, Y, Tanaka, KF, Kiyonari, H, Iino, M, Mochizuki, H, Tainaka, K & Ueda, HR 2018, 'A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing', Nature Neuroscience, vol. 21, no. 4, pp. 625-637. https://doi.org/10.1038/s41593-018-0109-1

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AU - Tanaka, Kenji F.

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AU - Iino, Masamitsu

AU - Mochizuki, Hideki

AU - Tainaka, Kazuki

AU - Ueda, Hiroki R.

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A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing

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