A transcriptome database for astrocytes, neurons, and oligodendrocytes: A new resource for understanding brain development and function

John D. Cahoy, Ben Emery, Amit Kaushal, Lynette C. Foo, Jennifer L. Zamanian, Karen S. Christopherson, Yi Xing, Jane L. Lubischer, Paul A. Krieg, Sergey A. Krupenko, Wesley J. Thompson, Ben A. Barres

Research output: Contribution to journalArticle

1686 Citations (Scopus)

Abstract

Understanding the cell-cell interactions that control CNS development and function has long been limited by the lack of methods to cleanly separate neural cell types. Here we describe methods for the prospective isolation and purification of astrocytes, neurons, and oligodendrocytes from developing and mature mouse forebrain. We used FACS (fluorescent-activated cell sorting) to isolate astrocytes from transgenic mice that express enhanced green fluorescent protein (EGFP) under the control of an S100β promoter. Using Affymetrix GeneChip Arrays, we then created a transcriptome database of the expression levels of >20,000 genes by gene profiling these three main CNS neural cell types at various postnatal ages between postnatal day 1 (P1) and P30. This database provides a detailed global characterization and comparison of the genes expressed by acutely isolated astrocytes, neurons, and oligodendrocytes. We found that Aldh1L1 is a highly specific antigenic marker for astrocytes with a substantially broader pattern of astrocyte expression than the traditional astrocyte marker GFAP. Astrocytes were enriched in specific metabolic and lipid synthetic pathways, as well as the draper/Megf10 and Mertk/integrin αvβ5 phagocytic pathways suggesting that astrocytes are professional phagocytes. Our findings call into question the concept of a "glial" cell class as the gene profiles of astrocytes and oligodendrocytes are as dissimilar to each other as they are to neurons. This transcriptome database of acutely isolated purified astrocytes, neurons, and oligodendrocytes provides a resource to the neuroscience community by providing improved cell-type-specific markers and for better understanding of neural development, function, and disease.

Original languageEnglish (US)
Pages (from-to)264-278
Number of pages15
JournalJournal of Neuroscience
Volume28
Issue number1
DOIs
StatePublished - Jan 2 2008
Externally publishedYes

Fingerprint

Oligodendroglia
Transcriptome
Astrocytes
Databases
Neurons
Brain
Genes
Phagocytes
Neurosciences
Prosencephalon
Integrins
Cell Communication
Neuroglia
Transgenic Mice
Lipids

Keywords

  • Aldh1L1
  • Astrocyte
  • Astroglia
  • Culture
  • Draper
  • Gene profiling
  • GeneChip
  • Megf10
  • Mertk
  • Mfge8
  • Microarray
  • Neuron
  • Oligodendrocyte
  • Phagocytosis
  • Transcriptome

ASJC Scopus subject areas

  • Neuroscience(all)

Cite this

A transcriptome database for astrocytes, neurons, and oligodendrocytes : A new resource for understanding brain development and function. / Cahoy, John D.; Emery, Ben; Kaushal, Amit; Foo, Lynette C.; Zamanian, Jennifer L.; Christopherson, Karen S.; Xing, Yi; Lubischer, Jane L.; Krieg, Paul A.; Krupenko, Sergey A.; Thompson, Wesley J.; Barres, Ben A.

In: Journal of Neuroscience, Vol. 28, No. 1, 02.01.2008, p. 264-278.

Research output: Contribution to journalArticle

Cahoy, JD, Emery, B, Kaushal, A, Foo, LC, Zamanian, JL, Christopherson, KS, Xing, Y, Lubischer, JL, Krieg, PA, Krupenko, SA, Thompson, WJ & Barres, BA 2008, 'A transcriptome database for astrocytes, neurons, and oligodendrocytes: A new resource for understanding brain development and function', Journal of Neuroscience, vol. 28, no. 1, pp. 264-278. https://doi.org/10.1523/JNEUROSCI.4178-07.2008
Cahoy, John D. ; Emery, Ben ; Kaushal, Amit ; Foo, Lynette C. ; Zamanian, Jennifer L. ; Christopherson, Karen S. ; Xing, Yi ; Lubischer, Jane L. ; Krieg, Paul A. ; Krupenko, Sergey A. ; Thompson, Wesley J. ; Barres, Ben A. / A transcriptome database for astrocytes, neurons, and oligodendrocytes : A new resource for understanding brain development and function. In: Journal of Neuroscience. 2008 ; Vol. 28, No. 1. pp. 264-278.
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