Year: 2016
Type: article
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.
Source: Nature Communications
DOI: 10.1038/ncomms13390
Authors: Agnieszka A. Golicz, Philipp E. Bayer, Guy C. Barker, Patrick P. Edger, HyeRan 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
Institutions: The University of Queensland, The University of Western Australia, University of Warwick, Michigan State University, Korea Research Institute of Bioscience and Biotechnology, Cold Spring Harbor Laboratory, Agriculture and Agri-Food Canada, University of Georgia, University of Missouri, National Research Council Canada, Fujian Agriculture and Forestry University, J. Craig Venter Institute
Language: English
Subfield: Plant Science
Domain: Life Sciences
SDG: Zero hunger
Open Access status: gold
Estimated APC paid: $6,990
Funders: National Science Foundation, National Computational Infrastructure, Queensland Cyber Infrastructure Foundation, Australian Government, Department for Environment, Food and Rural Affairs, UK Government, University of Technology Sydney, Monash University, Griffith University, Queensland University of Technology, University of Queensland, Government of Western Australia, Biotechnology and Biological Sciences Research Council, Australian Research Council, National Cancer Institute, Division of Integrative Organismal Systems
Awards: The More the Merrier? Investigating copy number variation in Brassicas, Defining the Brassica pan-genome and establishing methods for gene conversion based crop improvement, G2358050682, Mapping recombination blocks in Brassica, Polyploidy and Plasticity in the Crop Brassicas, Establishing novel breeding methods for canola improvement, FlashLite: A High Performance Machine for Data Intensive Science, Sequencing and exploitation of the Brassica A genome, G794271079
OpenAlex ID: W2551069776