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Transcriptional programs in transient embryonic zones of the cerebral cortex defined by high-resolution mRNA sequencing
Open accessAbstract
Characterizing the genetic programs that specify development and evolution of the cerebral cortex is a central challenge in neuroscience. Stem cells in the transient embryonic ventricular and subventricular zones generate neurons that migrate across the intermediate zone to the overlying cortical plate, where they differentiate and form the neocortex. It is clear that not one but a multitude of molecular pathways are necessary to progress through each cellular milestone, yet the underlying transcriptional programs remain unknown. Here, we apply differential transcriptome analysis on microscopically isolated cell populations, to define five transcriptional programs that represent each transient embryonic zone and the progression between these zones. The five transcriptional programs contain largely uncharacterized genes in addition to transcripts necessary for stem cell maintenance, neurogenesis, migration, and differentiation. Additionally, we found intergenic transcriptionally active regions that possibly encode unique zone-specific transcripts. Finally, we present a high-resolution transcriptome map of transient zones in the embryonic mouse forebrain.
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“Expression varies between cell populations, and more detailed analysis of layers of fetal mouse neocortex found >2500 genes differentially expressed between ventricular zone (VZ), SZ, intermediate zone (IZ), and cortical plate (CP)16.”
From Transcriptional landscape of the prenatal human brain (2014) · cites this paper as [16]
In the citing paper
“Excitatory neurons, which constitute the majority of neocortical neurons, are derived from neocortical progenitors called radial glial (RG) cells in a germinal zone called the ventricular zone (VZ) (Ayoub et al., 2011; Fietz et al., 2012).”
From Genetic Changes Shaping the Human Brain (2015) · cites this paper as Ayoub et al., 2011
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Metadata
- Authors
- Ayoub, A. E., Oh, S., Xie, Y., Leng, J., Cotney, J., Dominguez, M. H., Noonan, J. P., & Rakic, P.
- Affiliations
- Yale University (US)
- Corresponding author
- Rakic, Pasko
- ORCID
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2011-08-22
- Volume
- 108
- Issue
- 36
- Pages
- 14950-14955
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- PMC
- PMC3169109
- OpenAlex
- W2166465090
- Cited by
- 129
- References
- 52
- Citations by year
- 2025: 2 · 2024: 3 · 2023: 1 · 2022: 6 · 2021: 4 · 2020: 12 · 2019: 13 · 2018: 10 · 2017: 10 · 2016: 9 · 2015: 20 · 2014: 15 · 2013: 14 · 2012: 10
- FWCI
- 4.10
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Proceedings of the National Academy of Sciences (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Funders
- Yale University
- National Institutes of Health (1s10rr019895-01, DA02399, GM094780)
- National Institute on Drug Abuse (DA02399, R37DA023999)
- National Institute of General Medical Sciences (GM094780, R01GM094780)
- National Institute of Neurological Disorders and Stroke (R01NS014841)
- National Center for Research Resources (RR 19895, S10_RR019895)
- Topics
- Life Sciences › Neuroscience › Developmental Neuroscience › Neurogenesis and neuroplasticity mechanisms
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Keywords
- cortical development, transcriptional programs, ventricular zone, subventricular zone, intermediate zone, cortical plate, neuronal migration, neurogenesis, stem cell maintenance, neuronal differentiation, intergenic transcripts, mouse forebrain, single-cell transcriptomics
- MeSH terms
- Animals, Cell Differentiation, Cell Movement, Cerebral Cortex, Neurons, RNA, Messenger, Transcription, Genetic, Sequence Analysis, RNA, Gene Expression Profiling, Mice, Neurogenesis
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