The pangenome of an agronomically important crop plant Brassica oleracea

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.

• NS
  National Science Foundation

  Awards: IOS 1339156, NSF IOS 1339156, 1339156
• NC
  National Computational Infrastructure
• QC
  Queensland Cyber Infrastructure Foundation
• AG
  Australian Government
• DF
  Department for Environment, Food and Rural Affairs, UK Government
• UO
  University of Technology Sydney
• MU
  Monash University
• GU
  Griffith University
• QU
  Queensland University of Technology
• UO
  University of Queensland
• GO
  Government of Western Australia
• BA
  Biotechnology and Biological Sciences Research Council

  Award: BB/E017479/1
• AR
  Australian Research Council

  Awards: DP160104497, LP140100537, LP110100200, LP130100925, LE140100061
• NC
  National Cancer Institute
• DO
  Division of Integrative Organismal Systems

  Award: 1339156