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Nat Neurosci DOI:10.1038/s41593-017-0029-5

Single-cell analysis of experience-dependent transcriptomic states in the mouse visual cortex.

Publication TypeJournal Article
Year of Publication2018
AuthorsHrvatin, S, Hochbaum, DR, M Nagy, A, Cicconet, M, Robertson, K, Cheadle, L, Zilionis, R, Ratner, A, Borges-Monroy, R, Klein, AM, Sabatini, BL, Greenberg, ME
JournalNat Neurosci
Date Published2018 Jan

Activity-dependent transcriptional responses shape cortical function. However, a comprehensive understanding of the diversity of these responses across the full range of cortical cell types, and how these changes contribute to neuronal plasticity and disease, is lacking. To investigate the breadth of transcriptional changes that occur across cell types in the mouse visual cortex after exposure to light, we applied high-throughput single-cell RNA sequencing. We identified significant and divergent transcriptional responses to stimulation in each of the 30 cell types characterized, thus revealing 611 stimulus-responsive genes. Excitatory pyramidal neurons exhibited inter- and intralaminar heterogeneity in the induction of stimulus-responsive genes. Non-neuronal cells showed clear transcriptional responses that may regulate experience-dependent changes in neurovascular coupling and myelination. Together, these results reveal the dynamic landscape of the stimulus-dependent transcriptional changes occurring across cell types in the visual cortex; these changes are probably critical for cortical function and may be sites of deregulation in developmental brain disorders.


Alternate JournalNat. Neurosci.
PubMed ID29230054
PubMed Central IDPMC5742025
Grant ListR37 NS028829 / NS / NINDS NIH HHS / United States
R37 NS046579 / NS / NINDS NIH HHS / United States
P30 NS072030 / NS / NINDS NIH HHS / United States
T32 AG000222 / AG / NIA NIH HHS / United States
T32 GM007753 / GM / NIGMS NIH HHS / United States
R01 NS028829 / NS / NINDS NIH HHS / United States
U54 HD090255 / HD / NICHD NIH HHS / United States
R33 CA212697 / CA / NCI NIH HHS / United States
R01 NS046579 / NS / NINDS NIH HHS / United States