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3C in Maize and Arabidopsis

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Plant Chromatin Dynamics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1675))

Abstract

With Chromosome Conformation Capture (3C), the relative interaction frequency of one chromosomal fragment with another can be determined. The technique is especially suited for unraveling the 3D organization of specific loci when focusing on aspects such as enhancer–promoter interactions or other topological conformations of the genome. 3C has been extensively used in animal systems, among others providing insight into gene regulation by distant cis-regulatory elements. In recent years, the 3C technique has been applied in plant research. However, the complexity of plant tissues prevents direct application of existing protocols from animals. Here, we describe an adapted protocol suitable for plant tissues, especially Arabidopsis thaliana and Zea mays.

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Acknowledgments

We gratefully acknowledge the support of the European Commission Seventh Framework-People-2012-ITN Project EpiTRAITS, GA-316965 (Epigenetic regulation of economically important plant traits) for Blaise Weber and Suraj Jamge. We thank Iris Hövel for her advice on 3C experiments on plant material.

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Author notes

  1. Blaise Weber and Suraj Jamge contributed equally to this work.

Authors and Affiliations

  1. Laboratory of Plant Development and Epigenetics, Swammerdam Institute for Life Sciences, University of Amsterdam, Science Park 904, 1098 XH, Amsterdam, The Netherlands

    Blaise Weber & Maike Stam

  2. Laboratory of Molecular Biology, Wageningen University and Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, The Netherlands

    Suraj Jamge

Authors
  1. Blaise Weber
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  2. Suraj Jamge
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  3. Maike Stam
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Corresponding author

Correspondence to Maike Stam .

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Editors and Affiliations

  1. Department of Molecular Biology, Wageningen University & Research, Wageningen, The Netherlands

    Marian Bemer

  2. Department of Plant and Microbial Biology, Zürich-Basel Plant Science Center, University of Zürich, Zürich, Switzerland

    Célia Baroux

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Weber, B., Jamge, S., Stam, M. (2018). 3C in Maize and Arabidopsis. In: Bemer, M., Baroux, C. (eds) Plant Chromatin Dynamics. Methods in Molecular Biology, vol 1675. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7318-7_15

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  • DOI: https://doi.org/10.1007/978-1-4939-7318-7_15

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7317-0

  • Online ISBN: 978-1-4939-7318-7

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