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Whole genome sequencing of canids reveals genomic regions under selection and variants influencing morphology

Author

Listed:
  • Jocelyn Plassais

    (National Institutes of Health)

  • Jaemin Kim

    (National Institutes of Health)

  • Brian W. Davis

    (National Institutes of Health
    Texas A&M University)

  • Danielle M. Karyadi

    (National Institutes of Health
    National Institutes of Health)

  • Andrew N. Hogan

    (National Institutes of Health)

  • Alex C. Harris

    (National Institutes of Health)

  • Brennan Decker

    (National Institutes of Health
    Harvard Medical School)

  • Heidi G. Parker

    (National Institutes of Health)

  • Elaine A. Ostrander

    (National Institutes of Health)

Abstract

Domestic dog breeds are characterized by an unrivaled diversity of morphologic traits and breed-associated behaviors resulting from human selective pressures. To identify the genetic underpinnings of such traits, we analyze 722 canine whole genome sequences (WGS), documenting over 91 million single nucleotide and small indels, creating a large catalog of genomic variation for a companion animal species. We undertake both selective sweep analyses and genome wide association studies (GWAS) inclusive of over 144 modern breeds, 54 wild canids and a hundred village dogs. Our results identify variants of strong impact associated with 16 phenotypes, including body weight variation which, when combined with existing data, explain greater than 90% of body size variation in dogs. We thus demonstrate that GWAS and selection scans performed with WGS are powerful complementary methods for expanding the utility of companion animal systems for the study of mammalian growth and biology.

Suggested Citation

  • Jocelyn Plassais & Jaemin Kim & Brian W. Davis & Danielle M. Karyadi & Andrew N. Hogan & Alex C. Harris & Brennan Decker & Heidi G. Parker & Elaine A. Ostrander, 2019. "Whole genome sequencing of canids reveals genomic regions under selection and variants influencing morphology," Nature Communications, Nature, vol. 10(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-09373-w
    DOI: 10.1038/s41467-019-09373-w
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    Cited by:

    1. Andrea J Slavney & Takeshi Kawakami & Meghan K Jensen & Thomas C Nelson & Aaron J Sams & Adam R Boyko, 2021. "Five genetic variants explain over 70% of hair coat pheomelanin intensity variation in purebred and mixed breed domestic dogs," PLOS ONE, Public Library of Science, vol. 16(5), pages 1-23, May.

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