期刊
NATURE COMMUNICATIONS
卷 6, 期 -, 页码 -出版社
NATURE PORTFOLIO
DOI: 10.1038/ncomms9824
关键词
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资金
- NYU Abu Dhabi Research Institute
- US National Science Foundation Plant Genome Research Program (NSF PGRP)
- Human Frontier Science Program Postdoctoral Fellowship
- NSF PGRP Postdoctoral Fellowship
- Qatar Foundation National Research Priorities [NPRPX-014-4-001]
- Division Of Integrative Organismal Systems
- Direct For Biological Sciences [1202803, 1126971] Funding Source: National Science Foundation
- ARS [813428, ARS-0424578] Funding Source: Federal RePORTER
Date palms (Phoenix dactylifera) are the most significant perennial crop in arid regions of the Middle East and North Africa. Here, we present a comprehensive catalogue of approximately seven million single nucleotide polymorphisms in date palms based on whole genome re-sequencing of a collection of 62 cultivars. Population structure analysis indicates a major genetic divide between North Africa and the Middle East/South Asian date palms, with evidence of admixture in cultivars from Egypt and Sudan. Genome-wide scans for selection suggest at least 56 genomic regions associated with selective sweeps that may underlie geographic adaptation. We report candidate mutations for trait variation, including nonsense polymorphisms and presence/absence variation in gene content in pathways for key agronomic traits. We also identify a copia-like retrotransposon insertion polymorphism in the R2R3 myb-like orthologue of the oil palm virescens gene associated with fruit colour variation. This analysis documents patterns of post-domestication diversification and provides a genomic resource for this economically important perennial tree crop.
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