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Efficient Preparation of High-Complexity ChIP-Seq Profiles from Early Xenopus Embryos

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Eukaryotic Transcriptional and Post-Transcriptional Gene Expression Regulation

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1507))

Abstract

Chromatin immunoprecipitation followed by next-generation sequencing (ChIP-seq) has become a powerful tool to acquire a precise and genome-wide snapshot of many chromatin features in vivo. These chromatin profiles are obtained by immunoprecipitation of cross-linked chromatin fragments to enrich the feature of interest. Sequencing and aligning the underlying DNA sequences to the genome make it possible to virtually reconstruct the global distribution of most chromatin features. We present here recent improvements to the ChIP-seq protocol by means of Xenopus embryos to prepare high-complexity DNA libraries from small amounts of biological material. This approach allows researchers to explore the landscape of chromatin regulators and states in early vertebrate embryos or in any biological entity with small numbers of cells.

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Acknowledgments

We are grateful for the help from Abdul Sesay and Leena Bhaw from the Advanced Sequencing Facility at the Francis Crick Institute. We thank Thomas Spruce for his comments on the manuscript. G.E.G. and J.C.S. were supported by the Medical Research Council (program number U117597140) and are now supported by the Francis Crick Institute.

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Authors and Affiliations

  1. The Francis Crick Institute, Developmental Biology Laboratory, 1 Midland Road, London, NW1 1AT, UK

    George E. Gentsch & James C. Smith

Authors
  1. George E. Gentsch
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  2. James C. Smith
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Corresponding author

Correspondence to George E. Gentsch .

Editor information

Editors and Affiliations

  1. Department of Pathology, Yale University School of Medicine, New Haven, Connecticut, USA

    Narendra Wajapeyee

  2. Department of Pathology, Yale University School of Medicine, New Haven, Connecticut, USA

    Romi Gupta

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Gentsch, G.E., Smith, J.C. (2017). Efficient Preparation of High-Complexity ChIP-Seq Profiles from Early Xenopus Embryos. In: Wajapeyee, N., Gupta, R. (eds) Eukaryotic Transcriptional and Post-Transcriptional Gene Expression Regulation. Methods in Molecular Biology, vol 1507. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6518-2_3

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  • DOI: https://doi.org/10.1007/978-1-4939-6518-2_3

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-6516-8

  • Online ISBN: 978-1-4939-6518-2

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