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The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation

Author

Listed:
  • Zheng Li

    (University of California)

  • Ming Wang

    (University of California)

  • Zhenhui Zhong

    (University of California)

  • Javier Gallego-Bartolomé

    (University of California
    CSIC-Universitat Politècnica de València)

  • Suhua Feng

    (University of California
    University of California at Los Angeles)

  • Yasaman Jami-Alahmadi

    (University of California)

  • Xinyi Wang

    (University of California)

  • James Wohlschlegel

    (University of California)

  • Sylvain Bischof

    (University of California
    University of Zurich)

  • Jeff A. Long

    (University of California)

  • Steven E. Jacobsen

    (University of California
    University of California at Los Angeles
    University of California)

Abstract

MORPHEUS’ MOLECULE1 (MOM1) is an Arabidopsis factor previously shown to mediate transcriptional silencing independent of major DNA methylation changes. Here we find that MOM1 localizes with sites of RNA-directed DNA methylation (RdDM). Tethering MOM1 with an artificial zinc finger to an unmethylated FWA promoter leads to establishment of DNA methylation and FWA silencing. This process is blocked by mutations in components of the Pol V arm of the RdDM machinery, as well as by mutation of MICRORCHIDIA 6 (MORC6). We find that at some endogenous RdDM sites, MOM1 is required to maintain DNA methylation and a closed chromatin state. In addition, efficient silencing of newly introduced FWA transgenes is impaired in the mom1 mutant. In addition to RdDM sites, we identify a group of MOM1 peaks at active chromatin near genes that colocalized with MORC6. These findings demonstrate a multifaceted role of MOM1 in genome regulation.

Suggested Citation

  • Zheng Li & Ming Wang & Zhenhui Zhong & Javier Gallego-Bartolomé & Suhua Feng & Yasaman Jami-Alahmadi & Xinyi Wang & James Wohlschlegel & Sylvain Bischof & Jeff A. Long & Steven E. Jacobsen, 2023. "The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-39751-4
    DOI: 10.1038/s41467-023-39751-4
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    1. Yi-Zhe Zhang & Jianlong Yuan & Lingrui Zhang & Chunxiang Chen & Yuhua Wang & Guiping Zhang & Li Peng & Si-Si Xie & Jing Jiang & Jian-Kang Zhu & Jiamu Du & Cheng-Guo Duan, 2020. "Coupling of H3K27me3 recognition with transcriptional repression through the BAH-PHD-CPL2 complex in Arabidopsis," Nature Communications, Nature, vol. 11(1), pages 1-16, December.
    2. Zhihuan Gao & Hai-Liang Liu & Lucia Daxinger & Olga Pontes & Xinjian He & Weiqiang Qian & Huixin Lin & Mingtang Xie & Zdravko J. Lorkovic & Shoudong Zhang & Daisuke Miki & Xiangqiang Zhan & Dominique , 2010. "An RNA polymerase II- and AGO4-associated protein acts in RNA-directed DNA methylation," Nature, Nature, vol. 465(7294), pages 106-109, May.
    3. Qikun Liu & Sylvain Bischof & C. Jake Harris & Zhenhui Zhong & Lingyu Zhan & Calvin Nguyen & Andrew Rashoff & William D. Barshop & Fei Sun & Suhua Feng & Magdalena Potok & Javier Gallego-Bartolome & J, 2020. "The characterization of Mediator 12 and 13 as conditional positive gene regulators in Arabidopsis," Nature Communications, Nature, vol. 11(1), pages 1-13, December.
    4. Paolo Amedeo & Yoshiki Habu & Karin Afsar & Ortrun Mittelsten Scheid & Jerzy Paszkowski, 2000. "Disruption of the plant gene MOM releases transcriptional silencing of methylated genes," Nature, Nature, vol. 405(6783), pages 203-206, May.
    5. Lianna M. Johnson & Jiamu Du & Christopher J. Hale & Sylvain Bischof & Suhua Feng & Ramakrishna K. Chodavarapu & Xuehua Zhong & Giuseppe Marson & Matteo Pellegrini & David J. Segal & Dinshaw J. Patel , 2014. "SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation," Nature, Nature, vol. 507(7490), pages 124-128, March.
    6. Yan Xue & Zhenhui Zhong & C. Jake Harris & Javier Gallego-Bartolomé & Ming Wang & Colette Picard & Xueshi Cao & Shan Hua & Ivy Kwok & Suhua Feng & Yasaman Jami-Alahmadi & Jihui Sha & Jason Gardiner & , 2021. "Arabidopsis MORC proteins function in the efficient establishment of RNA directed DNA methylation," Nature Communications, Nature, vol. 12(1), pages 1-13, December.
    7. Somsakul Pop Wongpalee & Shiheng Liu & Javier Gallego-Bartolomé & Alexander Leitner & Ruedi Aebersold & Wanlu Liu & Linda Yen & Maria A. Nohales & Peggy Hsuanyu Kuo & Ajay A. Vashisht & James A. Wohls, 2019. "CryoEM structures of Arabidopsis DDR complexes involved in RNA-directed DNA methylation," Nature Communications, Nature, vol. 10(1), pages 1-12, December.
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    1. Linhua Sun & Jingru Zhou & Xiao Xu & Yi Liu & Ni Ma & Yutong Liu & Wenchao Nie & Ling Zou & Xing Wang Deng & Hang He, 2024. "Mapping nucleosome-resolution chromatin organization and enhancer-promoter loops in plants using Micro-C-XL," Nature Communications, Nature, vol. 15(1), pages 1-18, December.

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