Genome-wide association mapping of date palm fruit traits

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, Jianwei Zhang, Jayson Talag, Seunghee Lee, David Kudrna, Robyn F. Powell, Ilia J. Leitch, Robert R. Krueger, Rod A. Wing, Khaled M.A. AmiriMichael D. Purugganan

Research output: Contribution to journalArticle

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.

Original languageEnglish (US)
Article number4680
JournalNature Communications
Volume10
Issue number1
DOIs
StatePublished - Dec 1 2019

Fingerprint

fruits
genome
Fruits
Genome-Wide Association Study
Fruit
Genes
Association reactions
Genome
beta-Fructofuranosidase
crops
sugars
genes
Transcription Factors
Color
Middle East
Phoenix (AZ)
color
Northern Africa
Sugars
Eastern Africa

ASJC Scopus subject areas

  • Chemistry(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Physics and Astronomy(all)

Cite this

Genome-wide association mapping of date palm fruit traits. / Hazzouri, Khaled M.; Gros-Balthazard, Muriel; Flowers, Jonathan M.; Copetti, Dario; Lemansour, Alain; Lebrun, Marc; Masmoudi, Khaled; Ferrand, Sylvie; Dhar, Michael I.; Fresquez, Zoë A.; Rosas, Ulises; Zhang, Jianwei; Talag, Jayson; Lee, Seunghee; Kudrna, David; Powell, Robyn F.; Leitch, Ilia J.; Krueger, Robert R.; Wing, Rod A.; Amiri, Khaled M.A.; Purugganan, Michael D.

In: Nature Communications, Vol. 10, No. 1, 4680, 01.12.2019.

Research output: Contribution to journalArticle

Hazzouri, KM, Gros-Balthazard, M, Flowers, JM, Copetti, D, Lemansour, A, Lebrun, M, Masmoudi, K, Ferrand, S, Dhar, MI, Fresquez, ZA, Rosas, U, Zhang, J, Talag, J, Lee, S, Kudrna, D, Powell, RF, Leitch, IJ, Krueger, RR, Wing, RA, Amiri, KMA & Purugganan, MD 2019, 'Genome-wide association mapping of date palm fruit traits', Nature Communications, vol. 10, no. 1, 4680. https://doi.org/10.1038/s41467-019-12604-9
Hazzouri, Khaled M. ; Gros-Balthazard, Muriel ; Flowers, Jonathan M. ; Copetti, Dario ; Lemansour, Alain ; Lebrun, Marc ; Masmoudi, Khaled ; Ferrand, Sylvie ; Dhar, Michael I. ; Fresquez, Zoë A. ; Rosas, Ulises ; Zhang, Jianwei ; Talag, Jayson ; Lee, Seunghee ; Kudrna, David ; Powell, Robyn F. ; Leitch, Ilia J. ; Krueger, Robert R. ; Wing, Rod A. ; Amiri, Khaled M.A. ; Purugganan, Michael D. / Genome-wide association mapping of date palm fruit traits. In: Nature Communications. 2019 ; Vol. 10, No. 1.
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