title: The draft genome of a diploid cotton Gossypium raimondii.
abstract: We have sequenced and assembled a draft genome of G. raimondii, whose progenitor is the putative contributor of the D subgenome to the economically important fiber-producing cotton species Gossypium hirsutum and Gossypium barbadense. Over 73% of the assembled sequences were anchored on 13 G. raimondii chromosomes. The genome contains 40,976 protein-coding genes, with 92.2% of these further confirmed by transcriptome data. Evidence of the hexaploidization event shared by the eudicots as well as of a cotton-specific whole-genome duplication approximately 13-20 million years ago was observed. We identified 2,355 syntenic blocks in the G. raimondii genome, and we found that approximately 40% of the paralogous genes were present in more than 1 block, which suggests that this genome has undergone substantial chromosome rearrangement during its evolution. Cotton, and probably Theobroma cacao, are the only sequenced plant species that possess an authentic CDN1 gene family for gossypol biosynthesis, as revealed by phylogenetic analysis.
authors.affiliation: State Key Laboratory of Cotton Biology, Cotton Research Institute, Chinese Academy of Agricultural Sciences, Anyang, China.
authors.forename: Kunbo
authors.initials: K
authors.lastname: Wang
authors.forename: Zhiwen
authors.initials: Z
authors.lastname: Wang
authors.forename: Fuguang
authors.initials: F
authors.lastname: Li
authors.forename: Wuwei
authors.initials: W
authors.lastname: Ye
authors.forename: Junyi
authors.initials: J
authors.lastname: Wang
authors.forename: Guoli
authors.initials: G
authors.lastname: Song
authors.forename: Zhen
authors.initials: Z
authors.lastname: Yue
authors.forename: Lin
authors.initials: L
authors.lastname: Cong
authors.forename: Haihong
authors.initials: H
authors.lastname: Shang
authors.forename: Shilin
authors.initials: S
authors.lastname: Zhu
authors.forename: Changsong
authors.initials: C
authors.lastname: Zou
authors.forename: Qin
authors.initials: Q
authors.lastname: Li
authors.forename: Youlu
authors.initials: Y
authors.lastname: Yuan
authors.forename: Cairui
authors.initials: C
authors.lastname: Lu
authors.forename: Hengling
authors.initials: H
authors.lastname: Wei
authors.forename: Caiyun
authors.initials: C
authors.lastname: Gou
authors.forename: Zequn
authors.initials: Z
authors.lastname: Zheng
authors.forename: Ye
authors.initials: Y
authors.lastname: Yin
authors.forename: Xueyan
authors.initials: X
authors.lastname: Zhang
authors.forename: Kun
authors.initials: K
authors.lastname: Liu
authors.forename: Bo
authors.initials: B
authors.lastname: Wang
authors.forename: Chi
authors.initials: C
authors.lastname: Song
authors.forename: Nan
authors.initials: N
authors.lastname: Shi
authors.forename: Russell J
authors.initials: RJ
authors.lastname: Kohel
authors.forename: Richard G
authors.initials: RG
authors.lastname: Percy
authors.forename: John Z
authors.initials: JZ
authors.lastname: Yu
authors.forename: Yu-Xian
authors.initials: YX
authors.lastname: Zhu
authors.forename: Jun
authors.initials: J
authors.lastname: Wang
authors.forename: Shuxun
authors.initials: S
authors.lastname: Yu
mesh_terms: D001483:Base Sequence; D053898:Biosynthetic Pathways / Q000235:genetics; D032461:Chromosomes, Plant; D004251:DNA Transposable Elements; D004171:Diploidy; D019143:Evolution, Molecular; D017343:Genes, Plant; D018745:Genome, Plant; D003368:Gossypium / Q000201:enzymology / Q000235:genetics*; D059014:High-Throughput Nucleotide Sequencing; D018895:Microsatellite Repeats; D058977:Molecular Sequence Annotation; D010802:Phylogeny; D017422:Sequence Analysis, DNA; D026801:Synteny; D020079:Terminal Repeat Sequences; D059467:Transcriptome
chemical_list: D004251:DNA Transposable Elements