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Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia

Author

Listed:
  • Jean-Marc Aury

    (Genoscope and CNRS UMR 8030)

  • Olivier Jaillon

    (Genoscope and CNRS UMR 8030)

  • Laurent Duret

    (Laboratoire de Biométrie et Biologie Évolutive CNRS UMR 5558, Université Lyon 1)

  • Benjamin Noel

    (Genoscope and CNRS UMR 8030)

  • Claire Jubin

    (Genoscope and CNRS UMR 8030)

  • Betina M. Porcel

    (Genoscope and CNRS UMR 8030)

  • Béatrice Ségurens

    (Genoscope and CNRS UMR 8030)

  • Vincent Daubin

    (Laboratoire de Biométrie et Biologie Évolutive CNRS UMR 5558, Université Lyon 1)

  • Véronique Anthouard

    (Genoscope and CNRS UMR 8030)

  • Nathalie Aiach

    (Genoscope and CNRS UMR 8030)

  • Olivier Arnaiz

    (Centre de Génétique Moléculaire, CNRS)

  • Alain Billaut

    (Genoscope and CNRS UMR 8030)

  • Janine Beisson

    (Centre de Génétique Moléculaire, CNRS)

  • Isabelle Blanc

    (Centre de Génétique Moléculaire, CNRS)

  • Khaled Bouhouche

    (Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Francisco Câmara

    (Universitat Pompeu Fabra)

  • Sandra Duharcourt

    (Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Roderic Guigo

    (Universitat Pompeu Fabra)

  • Delphine Gogendeau

    (Centre de Génétique Moléculaire, CNRS)

  • Michael Katinka

    (Genoscope and CNRS UMR 8030)

  • Anne-Marie Keller

    (Centre de Génétique Moléculaire, CNRS)

  • Roland Kissmehl

    (University of Konstanz)

  • Catherine Klotz

    (Centre de Génétique Moléculaire, CNRS)

  • France Koll

    (Centre de Génétique Moléculaire, CNRS)

  • Anne Le Mouël

    (Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Gersende Lepère

    (Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Sophie Malinsky

    (Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Mariusz Nowacki

    (Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Jacek K. Nowak

    (Polish Academy of Sciences)

  • Helmut Plattner

    (University of Konstanz)

  • Julie Poulain

    (Genoscope and CNRS UMR 8030)

  • Françoise Ruiz

    (Centre de Génétique Moléculaire, CNRS)

  • Vincent Serrano

    (Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Marek Zagulski

    (Polish Academy of Sciences)

  • Philippe Dessen

    (Laboratoire Génomes et Cancers, FRE 2939 CNRS, Institut Gustave Roussy)

  • Mireille Bétermier

    (Centre de Génétique Moléculaire, CNRS
    Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Jean Weissenbach

    (Genoscope and CNRS UMR 8030)

  • Claude Scarpelli

    (Genoscope and CNRS UMR 8030)

  • Vincent Schächter

    (Genoscope and CNRS UMR 8030)

  • Linda Sperling

    (Centre de Génétique Moléculaire, CNRS)

  • Eric Meyer

    (Laboratoire de Génétique Moléculaire, CNRS UMR 8541, École Normale Supérieure)

  • Jean Cohen

    (Centre de Génétique Moléculaire, CNRS)

  • Patrick Wincker

    (Genoscope and CNRS UMR 8030)

Abstract

The duplication of entire genomes has long been recognized as having great potential for evolutionary novelties, but the mechanisms underlying their resolution through gene loss are poorly understood. Here we show that in the unicellular eukaryote Paramecium tetraurelia, a ciliate, most of the nearly 40,000 genes arose through at least three successive whole-genome duplications. Phylogenetic analysis indicates that the most recent duplication coincides with an explosion of speciation events that gave rise to the P. aurelia complex of 15 sibling species. We observed that gene loss occurs over a long timescale, not as an initial massive event. Genes from the same metabolic pathway or protein complex have common patterns of gene loss, and highly expressed genes are over-retained after all duplications. The conclusion of this analysis is that many genes are maintained after whole-genome duplication not because of functional innovation but because of gene dosage constraints.

Suggested Citation

  • Jean-Marc Aury & Olivier Jaillon & Laurent Duret & Benjamin Noel & Claire Jubin & Betina M. Porcel & Béatrice Ségurens & Vincent Daubin & Véronique Anthouard & Nathalie Aiach & Olivier Arnaiz & Alain , 2006. "Global trends of whole-genome duplications revealed by the ciliate Paramecium tetraurelia," Nature, Nature, vol. 444(7116), pages 171-178, November.
    • Handle: RePEc:nat:nature:v:444:y:2006:i:7116:d:10.1038_nature05230
    DOI: 10.1038/nature05230
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    Cited by:

    1. Xiaowen Shi & Hua Yang & Chen Chen & Jie Hou & Tieming Ji & Jianlin Cheng & James A. Birchler, 2022. "Dosage-sensitive miRNAs trigger modulation of gene expression during genomic imbalance in maize," Nature Communications, Nature, vol. 13(1), pages 1-15, December.

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