The pangenome of an agronomically important crop plant Brassica oleracea
Agnieszka A. Golicz(The University of Queensland), Philipp E. Bayer(The University of Western Australia), Guy C. Barker(University of Warwick), Patrick P. Edger(Michigan State University), Hye Ran Kim(Korea Research Institute of Bioscience and Biotechnology), Paula Andrea Martinez(The University of Queensland), Chon‐Kit Kenneth Chan(The University of Western Australia), Anita A. Severn‐Ellis(The University of Western Australia), W. Richard McCombie(Cold Spring Harbor Laboratory), Isobel A. P. Parkin(Agriculture and Agri-Food Canada), Andrew H. Paterson(University of Georgia), J. Chris Pires(University of Missouri), Andrew Sharpe(Saskatchewan Research Council (Canada)), Haibao Tang(Fujian Agriculture and Forestry University), Graham R. Teakle(University of Warwick), Christopher D. Town(J. Craig Venter Institute), Jacqueline Batley(The University of Western Australia), David Edwards(The University of Western Australia)
Cited by 569Open Access
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.