Microarray analysis of microRNA expression in the developing mammalian brain

BackgroundMicroRNAs are a large new class of tiny regulatory RNAs found in nematodes, plants, insects and mammals. MicroRNAs are thought to act as post-transcriptional modulators of gene expression. In invertebrates microRNAs have been implicated as regulators of developmental timing, neuronal differentiation, cell proliferation, programmed cell death and fat metabolism. Little is known about the roles of microRNAs in mammals.ResultsWe isolated 18-26 nucleotide RNAs from developing rat and monkey brains. From the sequences of these RNAs and the sequences of the rat and human genomes we determined which of these small RNAs are likely to have derived from stem-loop precursors typical of microRNAs. Next, we developed a microarray technology suitable for detecting microRNAs and printed a microRNA microarray representing 138 mammalian microRNAs corresponding to the sequences of the microRNAs we cloned as well as to other known microRNAs. We used this microarray to determine the profile of microRNAs expressed in the developing mouse brain. We observed a temporal wave of expression of microRNAs, suggesting that microRNAs play important roles in the development of the mammalian brain.ConclusionWe describe a microarray technology that can be used to analyze the expression of microRNAs and of other small RNAs. MicroRNA microarrays offer a new tool that should facilitate studies of the biological roles of microRNAs. We used this method to determine the microRNA expression profile during mouse brain development and observed a temporal wave of gene expression of sequential classes of microRNAs.

• Publication year

  2004

• Venue

  Genome Biology

• Publication date

  2004-08-31

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1186/gb-2004-5-9-r68PMID 15345052PMCID 522875
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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  2003influential reference
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  1999cited by this paper
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  1998cited by this paper
• Cluster analysis and display of genome-wide expression patterns.

  1998cited by this paper
• Molecular and Cellular Approaches to Neural Development

  1998cited by this paper
• Quantitative Monitoring of Gene Expression Patterns with a Complementary DNA Microarray

  1995cited by this paper
• Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans.

  1993cited by this paper
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  1993cited by this paper
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  1988cited by this paper
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  1986cited by this paper
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