IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v11y2020i1d10.1038_s41467-020-17959-y.html
   My bibliography  Save this article

Interaction of the pioneer transcription factor GATA3 with nucleosomes

Author

Listed:
  • Hiroki Tanaka

    (Institute for Quantitative Biosciences, The University of Tokyo
    Waseda University)

  • Yoshimasa Takizawa

    (Institute for Quantitative Biosciences, The University of Tokyo)

  • Motoki Takaku

    (National Institute of Environmental Health Sciences
    University of North Dakota School of Medicine and Health Sciences)

  • Daiki Kato

    (Waseda University
    Asahi Kasei Pharma Corporation)

  • Yusuke Kumagawa

    (Institute for Quantitative Biosciences, The University of Tokyo)

  • Sara A. Grimm

    (National Institute of Environmental Health Sciences)

  • Paul A. Wade

    (National Institute of Environmental Health Sciences)

  • Hitoshi Kurumizaka

    (Institute for Quantitative Biosciences, The University of Tokyo
    Waseda University)

Abstract

During cellular reprogramming, the pioneer transcription factor GATA3 binds chromatin, and in a context-dependent manner directs local chromatin remodeling and enhancer formation. Here, we use high-resolution nucleosome mapping in human cells to explore the impact of the position of GATA motifs on the surface of nucleosomes on productive enhancer formation, finding productivity correlates with binding sites located near the nucleosomal dyad axis. Biochemical experiments with model nucleosomes demonstrate sufficiently stable transcription factor-nucleosome interaction to empower cryo-electron microscopy structure determination of the complex at 3.15 Å resolution. The GATA3 zinc fingers efficiently bind their target 5′-GAT-3′ sequences in the nucleosome when they are located in solvent accessible, consecutive major grooves without significant changes in nucleosome structure. Analysis of genomic loci bound by GATA3 during reprogramming suggests a correlation of recognition motif sequence and spacing that may distinguish productivity of new enhancer formation.

Suggested Citation

  • Hiroki Tanaka & Yoshimasa Takizawa & Motoki Takaku & Daiki Kato & Yusuke Kumagawa & Sara A. Grimm & Paul A. Wade & Hitoshi Kurumizaka, 2020. "Interaction of the pioneer transcription factor GATA3 with nucleosomes," Nature Communications, Nature, vol. 11(1), pages 1-10, December.
    • Handle: RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-020-17959-y
    DOI: 10.1038/s41467-020-17959-y
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/s41467-020-17959-y
    File Function: Abstract
    Download Restriction: no
    File URL: https://libkey.io/10.1038/s41467-020-17959-y?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Joyce J. Thompson & Daniel J. Lee & Apratim Mitra & Sarah Frail & Ryan K. Dale & Pedro P. Rocha, 2022. "Extensive co-binding and rapid redistribution of NANOG and GATA6 during emergence of divergent lineages," Nature Communications, Nature, vol. 13(1), pages 1-18, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:11:y:2020:i:1:d:10.1038_s41467-020-17959-y. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.