title: Genome sequence of the date palm Phoenix dactylifera L.
abstract: Date palm (Phoenix dactylifera L.) is a cultivated woody plant species with agricultural and economic importance. Here we report a genome assembly for an elite variety (Khalas), which is 605.4 Mb in size and covers >90% of the genome (~671 Mb) and >96% of its genes (~41,660 genes). Genomic sequence analysis demonstrates that P. dactylifera experienced a clear genome-wide duplication after either ancient whole genome duplications or massive segmental duplications. Genetic diversity analysis indicates that its stress resistance and sugar metabolism-related genes tend to be enriched in the chromosomal regions where the density of single-nucleotide polymorphisms is relatively low. Using transcriptomic data, we also illustrate the date palm's unique sugar metabolism that underlies fruit development and ripening. Our large-scale genomic and transcriptomic data pave the way for further genomic studies not only on P. dactylifera but also other Arecaceae plants.
authors.affiliation: Joint Center for Genomics Research, King Abdulaziz City for Science and Technology and Chinese Academy of Sciences, Prince Turki Road, Riyadh 11442, Kingdom of Saudi Arabia. imssallem@kacst.edu.sa
authors.forename: Ibrahim S
authors.initials: IS
authors.lastname: Al-Mssallem
authors.forename: Songnian
authors.initials: S
authors.lastname: Hu
authors.forename: Xiaowei
authors.initials: X
authors.lastname: Zhang
authors.forename: Qiang
authors.initials: Q
authors.lastname: Lin
authors.forename: Wanfei
authors.initials: W
authors.lastname: Liu
authors.forename: Jun
authors.initials: J
authors.lastname: Tan
authors.forename: Xiaoguang
authors.initials: X
authors.lastname: Yu
authors.forename: Jiucheng
authors.initials: J
authors.lastname: Liu
authors.forename: Linlin
authors.initials: L
authors.lastname: Pan
authors.forename: Tongwu
authors.initials: T
authors.lastname: Zhang
authors.forename: Yuxin
authors.initials: Y
authors.lastname: Yin
authors.forename: Chengqi
authors.initials: C
authors.lastname: Xin
authors.forename: Hao
authors.initials: H
authors.lastname: Wu
authors.forename: Guangyu
authors.initials: G
authors.lastname: Zhang
authors.forename: Mohammed M
authors.initials: MM
authors.lastname: Ba Abdullah
authors.forename: Dawei
authors.initials: D
authors.lastname: Huang
authors.forename: Yongjun
authors.initials: Y
authors.lastname: Fang
authors.forename: Yasser O
authors.initials: YO
authors.lastname: Alnakhli
authors.forename: Shangang
authors.initials: S
authors.lastname: Jia
authors.forename: An
authors.initials: A
authors.lastname: Yin
authors.forename: Eman M
authors.initials: EM
authors.lastname: Alhuzimi
authors.forename: Burair A
authors.initials: BA
authors.lastname: Alsaihati
authors.forename: Saad A
authors.initials: SA
authors.lastname: Al-Owayyed
authors.forename: Duojun
authors.initials: D
authors.lastname: Zhao
authors.forename: Sun
authors.initials: S
authors.lastname: Zhang
authors.forename: Noha A
authors.initials: NA
authors.lastname: Al-Otaibi
authors.forename: Gaoyuan
authors.initials: G
authors.lastname: Sun
authors.forename: Majed A
authors.initials: MA
authors.lastname: Majrashi
authors.forename: Fusen
authors.initials: F
authors.lastname: Li
authors.lastname: Tala
authors.forename: Jixiang
authors.initials: J
authors.lastname: Wang
authors.forename: Quanzheng
authors.initials: Q
authors.lastname: Yun
authors.forename: Nafla A
authors.initials: NA
authors.lastname: Alnassar
authors.forename: Lei
authors.initials: L
authors.lastname: Wang
authors.forename: Meng
authors.initials: M
authors.lastname: Yang
authors.forename: Rasha F
authors.initials: RF
authors.lastname: Al-Jelaify
authors.forename: Kan
authors.initials: K
authors.lastname: Liu
authors.forename: Shenghan
authors.initials: S
authors.lastname: Gao
authors.forename: Kaifu
authors.initials: K
authors.lastname: Chen
authors.forename: Samiyah R
authors.initials: SR
authors.lastname: Alkhaldi
authors.forename: Guiming
authors.initials: G
authors.lastname: Liu
authors.forename: Meng
authors.initials: M
authors.lastname: Zhang
authors.forename: Haiyan
authors.initials: H
authors.lastname: Guo
authors.forename: Jun
authors.initials: J
authors.lastname: Yu
mesh_terms: D028023:Arecaceae / Q000235:genetics*; D001483:Base Sequence; D050260:Carbohydrate Metabolism / Q000235:genetics; D032461:Chromosomes, Plant / Q000235:genetics; D020440:Gene Duplication / Q000235:genetics; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D017343:Genes, Plant / Q000235:genetics; D018745:Genome, Plant / Q000235:genetics*; D058977:Molecular Sequence Annotation; D005810:Multigene Family / Q000235:genetics; D010802:Phylogeny; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D015203:Reproducibility of Results; D026801:Synteny / Q000235:genetics
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