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A role for the elongator complex in zygotic paternal genome demethylation

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Abstract

The life cycle of mammals begins when a sperm enters an egg. Immediately after fertilization, both the maternal and paternal genomes undergo dramatic reprogramming to prepare for the transition from germ cell to somatic cell transcription programs1. One of the molecular events that takes place during this transition is the demethylation of the paternal genome2,3. Despite extensive efforts, the factors responsible for paternal DNA demethylation have not been identified4. To search for such factors, we developed a live cell imaging system that allows us to monitor the paternal DNA methylation state in zygotes. Through short-interfering-RNA-mediated knockdown in mouse zygotes, we identified Elp3 (also called KAT9), a component of the elongator complex5, to be important for paternal DNA demethylation. We demonstrate that knockdown of Elp3 impairs paternal DNA demethylation as indicated by reporter binding, immunostaining and bisulphite sequencing. Similar results were also obtained when other elongator components, Elp1 and Elp4, were knocked down. Importantly, injection of messenger RNA encoding the Elp3 radical SAM domain mutant, but not the HAT domain mutant, into MII oocytes before fertilization also impaired paternal DNA demethylation, indicating that the SAM radical domain is involved in the demethylation process. Our study not only establishes a critical role for the elongator complex in zygotic paternal genome demethylation, but also indicates that the demethylation process may be mediated through a reaction that requires an intact radical SAM domain.

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Figure 1: Knockdown of Elp3 prevents preferential incorporation of the CxxC–EGFP reporter into the paternal pronucleus.
Figure 2: Knockdown of Elp3 impairs DNA demethylation in the paternal pronucleus.
Figure 3: Knockdown of the elongator components Elp1 and Elp4 also impairs paternal DNA demethylation in zygotes.
Figure 4: Mutation of the cysteine-rich radical SAM domain of Elp3 impairs paternal DNA demethylation.

Change history

  • 28 January 2010

    In the paragraph beginning 'To provide direct evidence...', the reference to Fig. 3c was corrected to Fig. 2c on 28 January 2010.

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Acknowledgements

We thank H. Song for providing the Gadd45b null mice, and K. Aoki and M. Matsuda for helping with image quantification. We are grateful to S. Wu for critical reading of the manuscript. Y.Z. is an investigator of the Howard Hughes Medical Institute.

Author Contributions Y.Z. conceived the project. Y.Z. and Y.O. designed the experiments and prepared the manuscript. Y.O. performed the majority of the experiments. K.Y. and K.H. helped with some of the experiments. T.W. provided the instruments and reagent for Y.O.’s technical training.

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Correspondence to Yi Zhang.

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Okada, Y., Yamagata, K., Hong, K. et al. A role for the elongator complex in zygotic paternal genome demethylation. Nature 463, 554–558 (2010). https://doi.org/10.1038/nature08732

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