Cited by 328Circadian rhythm and melatoninSingle-cell and spatial transcriptomicsCircular RNAs in diseases

Spatiotemporal single-cell analysis of gene expression in the mouse suprachiasmatic nucleus

Wen, Shao’ang, Ma, Danyi, Zhao, Meng, Xie, Lucheng, Wu, Qingqin, Gou, Lingfeng, Zhu, Chuanzhen, Fan, Yuqi +2 more·2020·Nature Neuroscience

Abstract

Mammalian circadian behaviors are orchestrated by the suprachiasmatic nucleus (SCN) in the ventral hypothalamus, but the number of SCN cell types and their functional roles remain unclear. We have used single-cell RNA-sequencing to identify the basic cell types in the mouse SCN and to characterize their circadian and light-induced gene expression patterns. We identified eight major cell types, with each type displaying a specific pattern of circadian gene expression. Five SCN neuronal subtypes, each with specific combinations of markers, differ in their spatial distribution, circadian rhythmicity and light responsiveness. Through a complete three-dimensional reconstruction of the mouse SCN at single-cell resolution, we obtained a standardized SCN atlas containing the spatial distribution of these subtypes and gene expression. Furthermore, we observed heterogeneous circadian gene expression between SCN neuron subtypes. Such a spatiotemporal pattern of gene regulation within the SCN may have an important function in the circadian pacemaker.

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Crossref · 10.1038/s41593-020-0586-x

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  • The 094 SCH Six6 Cdc14a Gaba subclass pacemaker cells are at a different phase of the circadian cycle of gene expression from the rest of the brain.

    “suggesting that the pacemaker cells are at a different phase of the circadian cycle of gene expression from the rest of the brain, consistent with previous findings117”

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Authors
Wen, S., Ma, D., Zhao, M., Xie, L., Wu, Q., Gou, L., Zhu, C., Fan, Y., Wang, H., & Yan, J.
Affiliations
Chinese Academy of Sciences (CN)
Corresponding author
Yan, Jun
Venue
Nature Neuroscience
Published
2020-02-17
Volume
23
Issue
3
Pages
456-467
ISSN
  • 1097-6256 (ISSN-L)
  • 1546-1726
OpenAlex
W3005834749
Cited by
328
References
58
Citations by year
2026: 35 · 2025: 50 · 2024: 75 · 2023: 54 · 2022: 37 · 2021: 45 · 2020: 32
FWCI
21.56
Type
journal article
Language
en
Open access
closed
Locations
  • Nature Neuroscience (publishedVersion)
  • PubMed (publishedVersion)
Funders
  • Natural Science Foundation of Shanghai (16ZR1448800)
  • National Natural Science Foundation of China (31571209)
  • Science and Technology Commission of Shanghai Municipality (No. 2018SHZDZX05)
Topics
  • Life Sciences › Neuroscience › Endocrine and Autonomic Systems › Circadian rhythm and melatonin
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Circular RNAs in diseases
Keywords
suprachiasmatic nucleus, circadian rhythm, circadian pacemaker, neuronal cell types, circadian gene expression, light-induced gene expression, single-cell RNA sequencing, 3D reconstruction, mice, ventral hypothalamus
MeSH terms
Animals, Atlases as Topic, Circadian Rhythm, Gene Expression Regulation, Light, Male, Mice, Inbred C57BL, Neurons, Photic Stimulation, Suprachiasmatic Nucleus, Gene Expression, Genomics, Mice, Circadian Rhythm Signaling Peptides and Proteins, Single-Cell Analysis

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