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From Methylome to Integrative Analysis of Tissue Specificity

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Catharanthus roseus

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2505))

Abstract

DNA methylation is the most studied epigenetic mark in both plants and animals. The gold standard for assaying genome-wide DNA methylation at single-base resolution is whole-genome bisulfite sequencing (WGBS). Here, we describe an improved procedure for WGBS and original bioinformatic workflows applied to unravel tissue-specific variations of the methylome in relation to gene expression and accumulation of secondary metabolites in the medicinal plant Catharanthus roseus.

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Acknowledgments

The protocol for WGBS analysis has been set-up in the laboratory of J. Tost in the framework of the ANR-BMBF funded project “Epigenomics of Parkinson’s Disease” (EpiPD, ANR-13-EPIG-0003-05). The research on C. roseus was funded by the “Région Centre Val de Loire” (France, ABISAL, and CatharSIS grants) for the University of Tours (V. Courdavault). Part of the methylome analysis was also developed in the frame of the ANR funded project EPITREE (ANR-17-CE32-0009-01; https://www6.inrae.fr/epitree-project_eng/) at the University of Orléans (S. Maury) and the CEA (J.Tost) in collaboration with the Plateforme Epigénomique Environnementale, IHPE Perpignan (https://bioinfo.univ-perp.fr/) providing computational infrastructure and bioinformatics support (C. Chaparro).

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Author notes

  1. Thomas Dugé de Bernonville and Christian Daviaud contributed equally to this work.

Authors and Affiliations

  1. EA2106 Biomolécules et Biotechnologies Végétales, Université de Tours, Tours, France

    Thomas Dugé de Bernonville

  2. Limagrain, Centre de Recherches de Chappes, Route d’Ennezat, Chappes, France

    Thomas Dugé de Bernonville

  3. Laboratory for Epigenetics and Environment, Centre National de Recherche en Génomique Humaine, CEA-Institut de Biologie François Jacob, Université Paris Saclay, Evry, France

    Christian Daviaud & Jörg Tost

  4. UMR5244 IHPE, Université Montpellier, CNRS, IFREMER, Université Perpignan, Perpignan, France

    Cristian Chaparro

  5. EA1207 USC1328 Laboratoire de Biologie des Ligneux et des Grandes Cultures, INRAe, Université d’Orléans, Orléans, France

    Stéphane Maury

Authors
  1. Thomas Dugé de Bernonville
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  2. Christian Daviaud
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  3. Cristian Chaparro
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  4. Jörg Tost
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  5. Stéphane Maury
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Corresponding author

Correspondence to Stéphane Maury .

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Editors and Affiliations

  1. EA2106 Biomolécules et Biotechnologies Végétales, Université de Tours, Tours, France

    Vincent Courdavault

  2. EA2106 Biomolécules et Biotechnologies Végétales, Université de Tours, Tours, France

    Sebastien Besseau

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© 2022 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

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Dugé de Bernonville, T., Daviaud, C., Chaparro, C., Tost, J., Maury, S. (2022). From Methylome to Integrative Analysis of Tissue Specificity. In: Courdavault, V., Besseau, S. (eds) Catharanthus roseus. Methods in Molecular Biology, vol 2505. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-2349-7_16

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  • DOI: https://doi.org/10.1007/978-1-0716-2349-7_16

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-2348-0

  • Online ISBN: 978-1-0716-2349-7

  • eBook Packages: Springer Protocols

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