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

doi:10.1038/ncomms13390

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

Research output: Contribution to journal › Article › peer-review

326 Citations (Scopus)

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 language	English
Article number	13390
Journal	Nature Communications
Volume	7
DOIs	https://doi.org/10.1038/ncomms13390
Publication status	Published - 11 Nov 2016

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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, Article 13390. https://doi.org/10.1038/ncomms13390

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title = "The pangenome of an agronomically important crop plant Brassica oleracea",

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.",

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Golicz, AA, Bayer, PE, Barker, GC, Edger, PP, Kim, HR, Martinez, PA, Chan, CKK, Severn-Ellis, A, McCombie, WR, Parkin, IAP, Paterson, AH, Pires, JC, Sharpe, AG, Tang, H, Teakle, GR, Town, CD, Batley, J & Edwards, D 2016, 'The pangenome of an agronomically important crop plant Brassica oleracea', Nature Communications, vol. 7, 13390. https://doi.org/10.1038/ncomms13390

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AU - Kim, Hye Ran

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AU - Chan, Chon Kit Kenneth

AU - Severn-Ellis, Anita

AU - McCombie, W. Richard

AU - Parkin, Isobel A P

AU - Paterson, Andrew H.

AU - Pires, J. Chris

AU - Sharpe, Andrew G.

AU - Tang, Haibao

AU - Teakle, Graham R.

AU - Town, Christopher D.

AU - Batley, Jacqueline

AU - Edwards, David

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The pangenome of an agronomically important crop plant Brassica oleracea

Abstract

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The More the Merrier? Investigating copy number variation in Brassicas

Establishing Novel Breeding Methods for Canola Improvement

Defining the Brassica Pan-genome and Establishing Methods for Gene Conversion Based Crop Improvement

Cite this

The pangenome of an agronomically important crop plant Brassica oleracea

Abstract

Access to Document

Other files and links

Fingerprint

Projects

The More the Merrier? Investigating copy number variation in Brassicas

Establishing Novel Breeding Methods for Canola Improvement

Defining the Brassica Pan-genome and Establishing Methods for Gene Conversion Based Crop Improvement

Cite this