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Sci Rep. 2015 Dec 4;5:17662. doi: 10.1038/srep17662.

The genome sequence of Sea-Island cotton (Gossypium barbadense) provides insights into the allopolyploidization and development of superior spinnable fibres.

Author information

1
National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Shizishan Street, Wuhan, Hubei 430070, China.
2
The Jackson Laboratory for Genome Medicine, 10 Discovery Drive, Farmington, CT 06032, USA.
3
College of Informatics, Huazhong Agricultural University, Shizishan Street, Wuhan, Hubei 430070, China.
4
Department of Genetics and Developmental Biology, University of Connecticut Health Center, 400 Farmington Ave, Farmington, CT 06032, USA.

Abstract

Gossypium hirsutum contributes the most production of cotton fibre, but G. barbadense is valued for its better comprehensive resistance and superior fibre properties. However, the allotetraploid genome of G. barbadense has not been comprehensively analysed. Here we present a high-quality assembly of the 2.57 gigabase genome of G. barbadense, including 80,876 protein-coding genes. The double-sized genome of the A (or At) (1.50 Gb) against D (or Dt) (853 Mb) primarily resulted from the expansion of Gypsy elements, including Peabody and Retrosat2 subclades in the Del clade, and the Athila subclade in the Athila/Tat clade. Substantial gene expansion and contraction were observed and rich homoeologous gene pairs with biased expression patterns were identified, suggesting abundant gene sub-functionalization occurred by allopolyploidization. More specifically, the CesA gene family has adapted differentially temporal expression patterns, suggesting an integrated regulatory mechanism of CesA genes from At and Dt subgenomes for the primary and secondary cellulose biosynthesis of cotton fibre in a "relay race"-like fashion. We anticipate that the G. barbadense genome sequence will advance our understanding the mechanism of genome polyploidization and underpin genome-wide comparison research in this genus.

PMID:
26634818
PMCID:
PMC4669482
DOI:
10.1038/srep17662
[Indexed for MEDLINE]
Free PMC Article

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