Uniparental expression of PolIV-dependent siRNAs in developing endosperm of Arabidopsis (original) (raw)

Nature volume 460, pages 283–286 (2009)Cite this article

Abstract

Most eukaryotes produce small RNA (sRNA) mediators of gene silencing that bind to Argonaute proteins and guide them, by base pairing, to an RNA target. MicroRNAs (miRNAs) that normally target messenger RNAs for degradation or translational arrest are the best-understood class of sRNAs. However, in Arabidopsis thaliana flowers, miRNAs account for only 5% of the sRNA mass and less than 0.1% of the sequence complexity. The remaining sRNAs form a complex population of more than 100,000 different small interfering RNAs (siRNAs) transcribed from thousands of loci1,2,3,4,5. The biogenesis of most of the siRNAs in Arabidopsis are dependent on RNA polymerase IV (PolIV), a homologue of DNA-dependent RNA polymerase II2,3,6. A subset of these PolIV-dependent (p4)-siRNAs are involved in stress responses, and others are associated with epigenetic modifications to DNA or chromatin; however, the biological role is not known for most of them. Here we show that the predominant phase of p4-siRNA accumulation is initiated in the maternal gametophyte and continues during seed development. Expression of p4-siRNAs in developing endosperm is specifically from maternal chromosomes. Our results provide the first evidence for a link between genomic imprinting and RNA silencing in plants.

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Acknowledgements

We thank I. Furner for met1-1 seed and A. Davis for photography. This work was supported by the Gatsby Charitable Foundation, the European Union Sixth Framework Programme Integrated Project SIROCCO (grant LSHG-CT-2006-037900), a postdoctoral fellowship from the National Science Foundation (to R.A.M.), and Commonwealth and NSERC Scholarships (to C.W.M.). D.C.B. is funded as a Royal Society Research Professor.

Author Contributions Experiments were designed by R.A.M. and D.C.B. and executed by R.A.M. with assistance from C.W.M. Bioinformatic and statistical analyses were performed by K.A.K., R.M.D. and D.J.S. The manuscript was prepared by R.A.M. and D.C.B.

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Authors and Affiliations

  1. Department of Plant Sciences, University of Cambridge, Downing Street, Cambridge CB2 3EA, UK,
    Rebecca A. Mosher, Charles W. Melnyk, Krystyna A. Kelly, Ruth M. Dunn & David C. Baulcombe
  2. The Sainsbury Laboratory, Colney Lane, Norwich NR4 7UH, UK,
    David J. Studholme

Authors

  1. Rebecca A. Mosher
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  2. Charles W. Melnyk
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  3. Krystyna A. Kelly
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  4. Ruth M. Dunn
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  5. David J. Studholme
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  6. David C. Baulcombe
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Corresponding author

Correspondence toDavid C. Baulcombe.

Additional information

Deep sequencing libraries are deposited in NCBI GEO (GSE15348).

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Supplementary Information

This file contains Supplementary Notes, Supplementary Tables S1-S3, Supplementary Figures S1-S4 with Legends and Supplementary References. (PDF 960 kb)

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Mosher, R., Melnyk, C., Kelly, K. et al. Uniparental expression of PolIV-dependent siRNAs in developing endosperm of Arabidopsis.Nature 460, 283–286 (2009). https://doi.org/10.1038/nature08084

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Editorial Summary

Genomic imprinting and RNA silencing linked in plants

Small interfering (si) RNAs that are associated with gene silencing have been discovered in most eukaryotes. Here, in Arabidopsis, siRNAs are shown to be uniparentally expressed from the maternal genome, and their maximal expression is in the young developing seed. This unusual pattern of expression provides evidence for a link between genomic imprinting and RNA silencing in plants.