Genome-wide target analysis of NEUROD2 provides new insights into regulation of cortical projection neuron migration and differentiation
Open accessAbstract
BACKGROUND: Cellular differentiation programs are controlled, to a large extent, by the combinatorial functioning of specific transcription factors. Cortical projection neurons constitute the major excitatory neuron population within the cortex and mediate long distance communication between the cortex and other brain regions. Our understanding of effector transcription factors and their downstream transcriptional programs that direct the differentiation process of cortical projection neurons is far from complete. RESULTS: In this study, we carried out a ChIP-Seq (chromatin-immunoprecipitation and sequencing) analysis of NEUROD2, an effector transcription factor expressed in lineages of cortical projection neurons during the peak of cortical excitatory neurogenesis. Our results suggest that during cortical development NEUROD2 targets key genes that are required for Reelin signaling, a major pathway that regulates the migration of neurons from germinal zones to their final layers of residence within the cortex. We also find that NEUROD2 binds to a large set of genes with functions in layer-specific differentiation and in axonal pathfinding of cortical projection neurons. CONCLUSIONS: Our analysis of in vivo NEUROD2 target genes offers mechanistic insight into signaling pathways that regulate neuronal migration and axon guidance and identifies genes that are likely to be required for proper cortical development.
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Few public ChIP-seq profiles exist for neural-specific transcription factors, and most of those have been performed in the developing mouse neocortex.
“However, very few public chromatin immunoprecipitation sequencing (ChIP-seq) profiles exist, and most of those have been performed in the developing mouse neocortex (Bayam et al., 2015, Notwell et al., 2016, Sun et al., 2015).”
From Multiscale 3D Genome Rewiring during Mouse Neural Development (2017) · cites this paper as Bayam et al., 2015
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- Authors
- Bayam, E., Sahin, G. S., Guzelsoy, G., Guner, G., Kabakcioglu, A., & Ince-Dunn, G.
- Affiliations
- Koç University (TR)
- Corresponding author
- Ince-Dunn, Gulayse
- Venue
- BMC Genomics
- Published
- 2015-09-05
- Volume
- 16
- Issue
- 1
- Pages
- 681-681
- ISSN
- 1471-2164 (ISSN-L)
- PMC
- PMC4560887
- OpenAlex
- W1778792730
- Cited by
- 57
- References
- 56
- Citations by year
- 2026: 1 · 2025: 8 · 2024: 3 · 2023: 8 · 2022: 7 · 2021: 5 · 2020: 9 · 2019: 4 · 2018: 3 · 2017: 7 · 2016: 2
- FWCI
- 1.62
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- cc-by
- Locations
- BMC Genomics (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Digital Collections portal (Koç University) (submittedVersion)
- Funders
- Seventh Framework Programme (PIRG07-GA-2010-268433)
- Türkiye Bilimsel ve Teknolojik Arastirma Kurumu (112T163)
- Koc University (ID0EYEAG2567)
- Türkiye Bilimler Akademisi (TR) (TUBA GEBIP, 2012)
- 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 › Genetics › Genetics and Neurodevelopmental Disorders
- Keywords
- NeuroD2, transcription factor target genes, cortical projection neurons, neuronal migration, Reelin signaling, cortical development, axon guidance, transcriptional regulation
- MeSH terms
- Reelin Protein, Animals, Binding Sites, Cell Differentiation, Cell Movement, Cerebral Cortex, Models, Biological, Neurons, Neuropeptides, Protein Binding, Gene Expression, Cell Lineage, Chromatin Immunoprecipitation, Mice, Basic Helix-Loop-Helix Proteins, Genome-Wide Association Study, High-Throughput Nucleotide Sequencing
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