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Genome-wide association mapping of date palm fruit traits

Author

Listed:
  • Khaled M. Hazzouri

    (New York University Abu Dhabi, Saadiyat Island
    UAE University)

  • Muriel Gros-Balthazard

    (New York University Abu Dhabi, Saadiyat Island)

  • Jonathan M. Flowers

    (New York University Abu Dhabi, Saadiyat Island
    New York University)

  • Dario Copetti

    (University of Arizona
    Institute of Agricultural Sciences, ETH Zurich
    University of Zurich)

  • Alain Lemansour

    (UAE University)

  • Marc Lebrun

    (CIRAD, UMR Qualisud)

  • Khaled Masmoudi

    (UAE University)

  • Sylvie Ferrand

    (New York University Abu Dhabi, Saadiyat Island)

  • Michael I. Dhar

    (New York University Abu Dhabi, Saadiyat Island)

  • Zoë A. Fresquez

    (New York University)

  • Ulises Rosas

    (New York University
    Ciudad Universitaria, Coyoacán)

  • Jianwei Zhang

    (University of Arizona)

  • Jayson Talag

    (University of Arizona)

  • Seunghee Lee

    (University of Arizona)

  • David Kudrna

    (University of Arizona)

  • Robyn F. Powell

    (Kew, Richmond)

  • Ilia J. Leitch

    (Kew, Richmond)

  • Robert R. Krueger

    (United States Department of Agriculture-Agriculture Research Service)

  • Rod A. Wing

    (University of Arizona
    King Abdullah University of Science and Technology)

  • Khaled M. A. Amiri

    (UAE University
    UAE University)

  • Michael D. Purugganan

    (New York University Abu Dhabi, Saadiyat Island
    New York University)

Abstract

Date palms (Phoenix dactylifera) are an important fruit crop of arid regions of the Middle East and North Africa. Despite its importance, few genomic resources exist for date palms, hampering evolutionary genomic studies of this perennial species. Here we report an improved long-read genome assembly for P. dactylifera that is 772.3 Mb in length, with contig N50 of 897.2 Kb, and use this to perform genome-wide association studies (GWAS) of the sex determining region and 21 fruit traits. We find a fruit color GWAS at the R2R3-MYB transcription factor VIRESCENS gene and identify functional alleles that include a retrotransposon insertion and start codon mutation. We also find a GWAS peak for sugar composition spanning deletion polymorphisms in multiple linked invertase genes. MYB transcription factors and invertase are implicated in fruit color and sugar composition in other crops, demonstrating the importance of parallel evolution in the evolutionary diversification of domesticated species.

Suggested Citation

  • Khaled M. Hazzouri & Muriel Gros-Balthazard & Jonathan M. Flowers & Dario Copetti & Alain Lemansour & Marc Lebrun & Khaled Masmoudi & Sylvie Ferrand & Michael I. Dhar & Zoë A. Fresquez & Ulises Rosas , 2019. "Genome-wide association mapping of date palm fruit traits," Nature Communications, Nature, vol. 10(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-12604-9
    DOI: 10.1038/s41467-019-12604-9
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