The pangenome of an agronomically important crop plant Brassica oleracea

Agnieszka A. Golicz, Philipp E. Bayer, Guy C. Barker, Patrick P. Edger, Hye Ran Kim, Paula A. Martinez, Chon Kit Kenneth Chan, Anita Severn-Ellis, W. Richard McCombie, Isobel A P Parkin, Andrew H. Paterson, J. Chris Pires, Andrew G. Sharpe, Haibao Tang, Graham R. Teakle, Christopher D. Town, Jacqueline Batley, David Edwards

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    Abstract

    There is an increasing awareness that as a result of structural variation, a reference sequence representing a genome of a single individual is unable to capture all of the gene repertoire found in the species. A large number of genes affected by presence/absence and copy number variation suggest that it may contribute to phenotypic and agronomic trait diversity. Here we show by analysis of the Brassica oleracea pangenome that nearly 20% of genes are affected by presence/absence variation. Several genes displaying presence/absence variation are annotated with functions related to major agronomic traits, including disease resistance, flowering time, glucosinolate metabolism and vitamin biosynthesis.

    Original languageEnglish
    Article number13390
    JournalNature Communications
    Volume7
    DOIs
    Publication statusPublished - 11 Nov 2016

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  • Cite this

    Golicz, A. A., Bayer, P. E., Barker, G. C., Edger, P. P., Kim, H. R., Martinez, P. A., Chan, C. K. K., Severn-Ellis, A., McCombie, W. R., Parkin, I. A. P., Paterson, A. H., Pires, J. C., Sharpe, A. G., Tang, H., Teakle, G. R., Town, C. D., Batley, J., & Edwards, D. (2016). The pangenome of an agronomically important crop plant Brassica oleracea. Nature Communications, 7, [13390]. https://doi.org/10.1038/ncomms13390