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Arabidopsis SWR1-associated protein methyl-CpG-binding domain 9 is required for histone H2A.Z deposition

Author

Listed:
  • Magdalena E. Potok

    (University of California, Los Angeles)

  • Yafei Wang

    (Fujian Agriculture and Forestry University)

  • Linhao Xu

    (Fujian Agriculture and Forestry University)

  • Zhenhui Zhong

    (University of California, Los Angeles
    Fujian Agriculture and Forestry University
    Fujian Agriculture and Forestry University)

  • Wanlu Liu

    (University of California, Los Angeles
    Zhejiang University School of Medicine)

  • Suhua Feng

    (University of California, Los Angeles)

  • Bilguudei Naranbaatar

    (University of California, Los Angeles)

  • Shima Rayatpisheh

    (University of California, Los Angeles
    Genomic Institute of the Novartis Research Foundation)

  • Zonghua Wang

    (Fujian Agriculture and Forestry University
    Minjiang University)

  • James A. Wohlschlegel

    (University of California, Los Angeles)

  • Israel Ausin

    (Fujian Agriculture and Forestry University)

  • Steven E. Jacobsen

    (University of California, Los Angeles
    University of California, Los Angeles)

Abstract

Deposition of the histone variant H2A.Z by the SWI2/SNF2-Related 1 chromatin remodeling complex (SWR1-C) is important for gene regulation in eukaryotes, but the composition of the Arabidopsis SWR1-C has not been thoroughly characterized. Here, we aim to identify interacting partners of a conserved Arabidopsis SWR1 subunit ACTIN-RELATED PROTEIN 6 (ARP6). We isolate nine predicted components and identify additional interactors implicated in histone acetylation and chromatin biology. One of the interacting partners, methyl-CpG-binding domain 9 (MBD9), also strongly interacts with the Imitation SWItch (ISWI) chromatin remodeling complex. MBD9 is required for deposition of H2A.Z at a distinct subset of ARP6-dependent loci. MBD9 is preferentially bound to nucleosome-depleted regions at the 5’ ends of genes containing high levels of activating histone marks. These data suggest that MBD9 is a SWR1-C interacting protein required for H2A.Z deposition at a subset of actively transcribing genes.

Suggested Citation

  • Magdalena E. Potok & Yafei Wang & Linhao Xu & Zhenhui Zhong & Wanlu Liu & Suhua Feng & Bilguudei Naranbaatar & Shima Rayatpisheh & Zonghua Wang & James A. Wohlschlegel & Israel Ausin & Steven E. Jacob, 2019. "Arabidopsis SWR1-associated protein methyl-CpG-binding domain 9 is required for histone H2A.Z deposition," Nature Communications, Nature, vol. 10(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-11291-w
    DOI: 10.1038/s41467-019-11291-w
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    Cited by:

    1. Yueying Zhang & Qianli Dong & Zhen Wang & Qinzhe Liu & Haopeng Yu & Wenqing Sun & Jitender Cheema & Qiancheng You & Ling Ding & Xiaofeng Cao & Chuan He & Yiliang Ding & Huakun Zhang, 2024. "A fine-scale Arabidopsis chromatin landscape reveals chromatin conformation-associated transcriptional dynamics," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
    2. Zhenhui Zhong & Yafei Wang & Ming Wang & Fan Yang & Quentin Angelo Thomas & Yan Xue & Yaxin Zhang & Wanlu Liu & Yasaman Jami-Alahmadi & Linhao Xu & Suhua Feng & Sebastian Marquardt & James A. Wohlschl, 2022. "Histone chaperone ASF1 mediates H3.3-H4 deposition in Arabidopsis," Nature Communications, Nature, vol. 13(1), pages 1-15, December.

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