Genome-wide association mapping of date palm fruit traits.
Alleles
Chromosome Mapping
Codon, Initiator
DNA, Plant
/ genetics
Fructose
Fruit
/ chemistry
Genome, Plant
/ genetics
Genome-Wide Association Study
Glucose
Mutation
Phenotype
Phoeniceae
/ genetics
Pigmentation
/ genetics
Polymorphism, Genetic
Retroelements
Sequence Analysis, DNA
Sex Determination Processes
/ genetics
Starch
Sucrose
beta-Fructofuranosidase
/ genetics
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
15 10 2019
15 10 2019
Historique:
received:
01
05
2019
accepted:
19
09
2019
entrez:
17
10
2019
pubmed:
17
10
2019
medline:
15
1
2020
Statut:
epublish
Résumé
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.
Identifiants
pubmed: 31615981
doi: 10.1038/s41467-019-12604-9
pii: 10.1038/s41467-019-12604-9
pmc: PMC6794320
doi:
Substances chimiques
Codon, Initiator
0
DNA, Plant
0
Retroelements
0
Fructose
30237-26-4
Sucrose
57-50-1
Starch
9005-25-8
beta-Fructofuranosidase
EC 3.2.1.26
Glucose
IY9XDZ35W2
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.
Langues
eng
Sous-ensembles de citation
IM
Pagination
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