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Evolutionary signals of selection on cognition from the great tit genome and methylome

Author

Listed:
  • Veronika N. Laine

    (Netherlands Institute of Ecology (NIOO-KNAW))

  • Toni I. Gossmann

    (University of Sheffield)

  • Kyle M. Schachtschneider

    (Animal Breeding and Genomics Centre, Wageningen University
    University of Illinois)

  • Colin J. Garroway

    (Edward Grey Institute, University of Oxford)

  • Ole Madsen

    (Animal Breeding and Genomics Centre, Wageningen University)

  • Koen J. F. Verhoeven

    (Netherlands Institute of Ecology (NIOO-KNAW))

  • Victor de Jager

    (Netherlands Institute of Ecology (NIOO-KNAW))

  • Hendrik-Jan Megens

    (Animal Breeding and Genomics Centre, Wageningen University)

  • Wesley C. Warren

    (The Genome Institute, Washington University School of Medicine)

  • Patrick Minx

    (The Genome Institute, Washington University School of Medicine)

  • Richard P. M. A. Crooijmans

    (Animal Breeding and Genomics Centre, Wageningen University)

  • Pádraic Corcoran

    (University of Sheffield)

  • Ben C. Sheldon

    (Edward Grey Institute, University of Oxford)

  • Jon Slate

    (University of Sheffield)

  • Kai Zeng

    (University of Sheffield)

  • Kees van Oers

    (Netherlands Institute of Ecology (NIOO-KNAW))

  • Marcel E. Visser

    (Netherlands Institute of Ecology (NIOO-KNAW)
    Animal Breeding and Genomics Centre, Wageningen University)

  • Martien A. M. Groenen

    (Animal Breeding and Genomics Centre, Wageningen University)

Abstract

For over 50 years, the great tit (Parus major) has been a model species for research in evolutionary, ecological and behavioural research; in particular, learning and cognition have been intensively studied. Here, to provide further insight into the molecular mechanisms behind these important traits, we de novo assemble a great tit reference genome and whole-genome re-sequence another 29 individuals from across Europe. We show an overrepresentation of genes related to neuronal functions, learning and cognition in regions under positive selection, as well as increased CpG methylation in these regions. In addition, great tit neuronal non-CpG methylation patterns are very similar to those observed in mammals, suggesting a universal role in neuronal epigenetic regulation which can affect learning-, memory- and experience-induced plasticity. The high-quality great tit genome assembly will play an instrumental role in furthering the integration of ecological, evolutionary, behavioural and genomic approaches in this model species.

Suggested Citation

  • Veronika N. Laine & Toni I. Gossmann & Kyle M. Schachtschneider & Colin J. Garroway & Ole Madsen & Koen J. F. Verhoeven & Victor de Jager & Hendrik-Jan Megens & Wesley C. Warren & Patrick Minx & Richa, 2016. "Evolutionary signals of selection on cognition from the great tit genome and methylome," Nature Communications, Nature, vol. 7(1), pages 1-9, April.
    • Handle: RePEc:nat:natcom:v:7:y:2016:i:1:d:10.1038_ncomms10474
    DOI: 10.1038/ncomms10474
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    Cited by:

    1. Yilin Chen & Zhiyong Jiang & Ping Fan & Per G. P. Ericson & Gang Song & Xu Luo & Fumin Lei & Yanhua Qu, 2022. "The combination of genomic offset and niche modelling provides insights into climate change-driven vulnerability," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
    2. Maria Moiron & Kimberley J. Mathot & Niels J. Dingemanse, 2016. "A multi-level approach to quantify speed-accuracy trade-offs in great tits (Parus major)," Behavioral Ecology, International Society for Behavioral Ecology, vol. 27(5), pages 1539-1546.
    3. Zhen Huang & Ivanete De O. Furo & Jing Liu & Valentina Peona & Anderson J. B. Gomes & Wan Cen & Hao Huang & Yanding Zhang & Duo Chen & Ting Xue & Qiujin Zhang & Zhicao Yue & Quanxi Wang & Lingyu Yu & , 2022. "Recurrent chromosome reshuffling and the evolution of neo-sex chromosomes in parrots," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    4. Johanna Klughammer & Daria Romanovskaia & Amelie Nemc & Annika Posautz & Charlotte A. Seid & Linda C. Schuster & Melissa C. Keinath & Juan Sebastian Lugo Ramos & Lindsay Kosack & Ann Evankow & Dieter , 2023. "Comparative analysis of genome-scale, base-resolution DNA methylation profiles across 580 animal species," Nature Communications, Nature, vol. 14(1), pages 1-23, December.

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