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Spontaneous epigenetic variation in the Arabidopsis thaliana methylome

Author

Listed:
  • Claude Becker

    (Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany)

  • Jörg Hagmann

    (Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany)

  • Jonas Müller

    (Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany)

  • Daniel Koenig

    (Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany)

  • Oliver Stegle

    (Machine Learning and Computational Biology Research Group, Max Planck Institute for Developmental Biology and Max Planck Institute for Intelligent Systems, 72076 Tübingen, Germany)

  • Karsten Borgwardt

    (Machine Learning and Computational Biology Research Group, Max Planck Institute for Developmental Biology and Max Planck Institute for Intelligent Systems, 72076 Tübingen, Germany)

  • Detlef Weigel

    (Max Planck Institute for Developmental Biology, 72076 Tübingen, Germany)

Abstract

Epigenetic variation in evolution The extent to which inherited epigenetic differences contribute to phenotypic variation and hence to evolution is a topic of intense research. This comparison of genome-wide DNA methylation among 10 Arabidopsis thaliana lines, derived from a common ancestor and maintained for 30 generations, shows that the methylation status of individual bases is dynamic. Hundreds of thousands of differentially methylated cytosines are generated, but wholesale changes of blocks of methylated cytosines — which have been linked to changes in gene expression and phenotypic differences — are rare and not random. So when differences arise, they often occur in more than one line.

Suggested Citation

  • Claude Becker & Jörg Hagmann & Jonas Müller & Daniel Koenig & Oliver Stegle & Karsten Borgwardt & Detlef Weigel, 2011. "Spontaneous epigenetic variation in the Arabidopsis thaliana methylome," Nature, Nature, vol. 480(7376), pages 245-249, December.
    • Handle: RePEc:nat:nature:v:480:y:2011:i:7376:d:10.1038_nature10555
    DOI: 10.1038/nature10555
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    Cited by:

    1. Peter Sarkies & Jennifer Westoby & Rebecca Mary Kilner & Rahia Mashoodh, 2024. "Gene body methylation evolves during the sustained loss of parental care in the burying beetle," Nature Communications, Nature, vol. 15(1), pages 1-12, December.
    2. Sun Shuying & Yu Xiaoqing, 2016. "HMM-Fisher: identifying differential methylation using a hidden Markov model and Fisher’s exact test," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 15(1), pages 55-67, March.
    3. Yu Xiaoqing & Sun Shuying, 2016. "Comparing five statistical methods of differential methylation identification using bisulfite sequencing data," Statistical Applications in Genetics and Molecular Biology, De Gruyter, vol. 15(2), pages 173-191, April.
    4. Geoghegan, Jemma L. & Spencer, Hamish G., 2013. "Exploring epiallele stability in a population-epigenetic model," Theoretical Population Biology, Elsevier, vol. 83(C), pages 136-144.
    5. Yinwen Zhang & Hosung Jang & Rui Xiao & Ioanna Kakoulidou & Robert S. Piecyk & Frank Johannes & Robert J. Schmitz, 2021. "Heterochromatin is a quantitative trait associated with spontaneous epiallele formation," Nature Communications, Nature, vol. 12(1), pages 1-13, December.
    6. Daniela Pacifico, 2018. "Upland Italian Potato Quality—A Perspective," Sustainability, MDPI, vol. 10(11), pages 1-11, October.

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