Cited by 83Neurogenesis and neuroplasticity mechanismsGenomics and Phylogenetic StudiesSingle-cell and spatial transcriptomics

Transcriptome of embryonic and neonatal mouse cortex by high-throughput RNA sequencing

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Han, Xinwei, Wu, Xia, Chung, Wen-Yu, Li, Tao, Nekrutenko, Anton, Altman, Naomi S., Chen, Gong, Ma, Hong·2009·Proceedings of the National Academy of Sciences

Abstract

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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Crossref · 10.1073/pnas.0902417106

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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.”

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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
Published
2009-08-04
Volume
106
Issue
31
Pages
12741-12746
ISSN
  • 0027-8424 (ISSN-L)
  • 1091-6490
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
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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