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The pluripotent genome in three dimensions is shaped around pluripotency factors

Author

Listed:
  • Elzo de Wit

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

  • Britta A. M. Bouwman

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

  • Yun Zhu

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

  • Petra Klous

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

  • Erik Splinter

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

  • Marjon J. A. M. Verstegen

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

  • Peter H. L. Krijger

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

  • Nicola Festuccia

    (MRC Centre for Regenerative Medicine, Institute for Stem Cell Research, School of Biological Sciences, University of Edinburgh, 5 Little France Drive, Edinburgh EH16 4UU, UK)

  • Elphège P. Nora

    (Mammalian Developmental Epigenetics Group, Institut Curie CNRS UMR3215 INSERM U934)

  • Maaike Welling

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

  • Edith Heard

    (Mammalian Developmental Epigenetics Group, Institut Curie CNRS UMR3215 INSERM U934)

  • Niels Geijsen

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
    Utrecht University, School of Veterinary Medicine)

  • Raymond A. Poot

    (Erasmus Medical Center)

  • Ian Chambers

    (MRC Centre for Regenerative Medicine, Institute for Stem Cell Research, School of Biological Sciences, University of Edinburgh, 5 Little France Drive, Edinburgh EH16 4UU, UK)

  • Wouter de Laat

    (Hubrecht Institute-KNAW & University Medical Center Utrecht, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands)

Abstract

Using 4C technology, higher-order topological features of the pluripotent genome are identified; in pluripotent stem cells, Nanog clusters specifically with other pluripotency genes and this clustering is centred around Nanog-binding sites, suggesting that Nanog helps to shape the three-dimensional structure of the pluripotent genome and thereby contributes to the robustness of the pluripotent state.

Suggested Citation

  • Elzo de Wit & Britta A. M. Bouwman & Yun Zhu & Petra Klous & Erik Splinter & Marjon J. A. M. Verstegen & Peter H. L. Krijger & Nicola Festuccia & Elphège P. Nora & Maaike Welling & Edith Heard & Niels, 2013. "The pluripotent genome in three dimensions is shaped around pluripotency factors," Nature, Nature, vol. 501(7466), pages 227-231, September.
    • Handle: RePEc:nat:nature:v:501:y:2013:i:7466:d:10.1038_nature12420
    DOI: 10.1038/nature12420
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    Citations

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    Cited by:

    1. Ramya Raviram & Pedro P Rocha & Christian L Müller & Emily R Miraldi & Sana Badri & Yi Fu & Emily Swanzey & Charlotte Proudhon & Valentina Snetkova & Richard Bonneau & Jane A Skok, 2016. "4C-ker: A Method to Reproducibly Identify Genome-Wide Interactions Captured by 4C-Seq Experiments," PLOS Computational Biology, Public Library of Science, vol. 12(3), pages 1-23, March.
    2. 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.
    3. 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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