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Charting the unknown epitranscriptome

Abstract

RNA modifications can alter RNA structure–function relationships and various cellular processes. However, the genomic distribution and biological roles of most RNA modifications remain uncharacterized. Here, we propose using phage display antibody technology and direct sequencing through nanopores to facilitate systematic interrogation of the distribution, location and dynamics of RNA modifications.

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Figure 1: The two proposed approaches to map RNA modifications.

References

  1. Jia, G. et al. N6-methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO. Nat. Chem. Biol. 7, 885–887 (2011).

    Article  CAS  Google Scholar 

  2. Saletore, Y. et al. The birth of the Epitranscriptome: deciphering the function of RNA modifications. Genome Biology 13, 175 (2012).

    Article  CAS  Google Scholar 

  3. Meyer, K. D. et al. Comprehensive analysis of mRNA methylation reveals enrichment in 3′ UTRs and near stop codons. Cell 149, 1635–1646 (2012).

    Article  CAS  Google Scholar 

  4. Dominissini, D. et al. Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature 485, 201–206 (2012).

    Article  CAS  Google Scholar 

  5. Hauenschild, R. et al. The reverse transcription signature of N-1-methyladenosine in RNA-Seq is sequence dependent. Nucleic Acids Res. 43, 9950–9964 (2015).

    CAS  PubMed  PubMed Central  Google Scholar 

  6. Lee, C. M., Iorno, N., Sierro, F. & Christ, D. Selection of human antibody fragments by phage display. Nat. Protoc. 2, 3001–3008 (2007).

    Article  CAS  Google Scholar 

  7. Simpson, J. T. et al. Detecting DNA cytosine methylation using nanopore sequencing. Nat. Methods 14, 407–410 (2017).

    Article  CAS  Google Scholar 

  8. Garalde, D. R. et al. Highly parallel direct RNA sequencing on an array of nanopores. bioRxiv https://doi.org/10.1101/068809 (2016).

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Correspondence to Eva Maria Novoa, Christopher E. Mason or John S. Mattick.

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The authors declare no competing financial interests.

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Novoa, E., Mason, C. & Mattick, J. Charting the unknown epitranscriptome. Nat Rev Mol Cell Biol 18, 339–340 (2017). https://doi.org/10.1038/nrm.2017.49

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