The pangenome of an agronomically important crop plant Brassica oleracea

Golicz, A. A., Bayer, P. E., Barker, G. C., Edger, P. P., Kim, H., Martinez, P. A., Chan, C. K., Severn-Ellis, A., McCombie, W. R., Parkin, I. A., 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. Nat Commun, 7. p. 13390. ISSN 2041-1723 (Electronic)2041-1723 (Linking)

URL: https://www.ncbi.nlm.nih.gov/pubmed/27834372
DOI: 10.1038/ncomms13390

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.

Item Type: Paper
Subjects: bioinformatics
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > genomes
organism description > plant
CSHL Authors:
Communities: CSHL labs > McCombie lab
Depositing User: Matt Covey
Date Deposited: 29 Nov 2016 20:41
Last Modified: 07 Sep 2017 16:28
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Dataset ID:
URI: http://repository.cshl.edu/id/eprint/33908

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