TY - JOUR
T1 - A three-dimensional single-cell-resolution whole-brain atlas using CUBIC-X expansion microscopy and tissue clearing
AU - Murakami, Tatsuya C.
AU - Mano, Tomoyuki
AU - Saikawa, Shu
AU - Horiguchi, Shuhei A.
AU - Shigeta, Daichi
AU - Baba, Kousuke
AU - Sekiya, Hiroshi
AU - Shimizu, Yoshihiro
AU - Tanaka, Kenji F.
AU - Kiyonari, Hiroshi
AU - Iino, Masamitsu
AU - Mochizuki, Hideki
AU - Tainaka, Kazuki
AU - Ueda, Hiroki R.
N1 - Publisher Copyright:
© 2018 The Author(s).
PY - 2018/4/1
Y1 - 2018/4/1
N2 - 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.
AB - 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.
UR - https://www.scopus.com/pages/publications/85042846320
UR - https://www.scopus.com/pages/publications/85042846320#tab=citedBy
U2 - 10.1038/s41593-018-0109-1
DO - 10.1038/s41593-018-0109-1
M3 - Article
C2 - 29507408
AN - SCOPUS:85042846320
SN - 1097-6256
VL - 21
SP - 625
EP - 637
JO - Nature Neuroscience
JF - Nature Neuroscience
IS - 4
ER -