Transcriptome of embryonic and neonatal mouse cortex by high-throughput RNA sequencing
Open accessAbstract
Brain structure and function experience dramatic changes from embryonic to postnatal development. Microarray analyses have detected differential gene expression at different stages and in disease models, but gene expression information during early brain development is limited. We have generated >27 million reads to identify mRNAs from the mouse cortex for >16,000 genes at either embryonic day 18 (E18) or postnatal day 7 (P7), a period of significant synaptogenesis for neural circuit formation. In addition, we devised strategies to detect alternative splice forms and uncovered more splice variants. We observed differential expression of 3,758 genes between the 2 stages, many with known functions or predicted to be important for neural development. Neurogenesis-related genes, such as those encoding Sox4, Sox11, and zinc-finger proteins, were more highly expressed at E18 than at P7. In contrast, the genes encoding synaptic proteins such as synaptotagmin, complexin 2, and syntaxin were up-regulated from E18 to P7. We also found that several neurological disorder-related genes were highly expressed at E18. Our transcriptome analysis may serve as a blueprint for gene expression pattern and provide functional clues of previously unknown genes and disease-related genes during early brain development.
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The number of DEG identified in the bovine PFC (16,384) is similar to that identified in mice (15,423) and silver foxes (14,000), the latter also in the PFC.
“The number of DEG identified in the bovine PFC (16,384) is similar to that identified in mice (15,423) [47] and silver foxes (14,000) [40], the latter also in the PFC.”
From Gene expression profiles underlying aggressive behavior in the prefrontal cortex of cattle (2021) · cites this paper as [47]
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- Authors
- Han, X., Wu, X., Chung, W.-Y., Li, T., Nekrutenko, A., Altman, N. S., Chen, G., & Ma, H.
- Affiliations
- Pennsylvania State University (US)
- Intercollege (CY)
- Department of Biology,
- Venue
- Proceedings of the National Academy of Sciences
- Publisher
- National Academy of Sciences
- Published
- 2009-08-04
- Volume
- 106
- Issue
- 31
- Pages
- 12741-12746
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- PMC
- PMC2722358
- OpenAlex
- W2015170243
- Cited by
- 83
- References
- 42
- Citations by year
- 2026: 3 · 2024: 2 · 2023: 2 · 2022: 6 · 2021: 7 · 2020: 4 · 2019: 7 · 2018: 3 · 2017: 3 · 2016: 5 · 2015: 5 · 2014: 5 · 2013: 10 · 2012: 7
- FWCI
- 2.20
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Proceedings of the National Academy of Sciences (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Institute of Hydrobiology, CAS Institutional Repository (submittedVersion)
- Funders
- National Institute of Neurological Disorders and Stroke (R21NS054858, NS054858)
- Topics
- Life Sciences › Neuroscience › Developmental Neuroscience › Neurogenesis and neuroplasticity mechanisms
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Single-cell and spatial transcriptomics
- Keywords
- mouse cortex, embryonic development, postnatal development, transcriptome, gene expression, alternative splicing, synaptogenesis, neurogenesis, SOX4, SOX11, zinc finger proteins, synaptic proteins, synaptotagmin, syntaxin, differential gene expression
- MeSH terms
- Animals, Animals, Newborn, Autophagy, Brain Diseases, Cerebral Cortex, Female, Mice, Inbred C57BL, Pregnancy, Synapses, Transcription Factors, Apoptosis, Sequence Analysis, RNA, Gene Expression Regulation, Developmental, Gene Expression Profiling, Mice
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