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dc.contributor.authorParkin, Isobel A
dc.contributor.authorKoh, Chushin
dc.contributor.authorTang, Haibao
dc.contributor.authorRobinson, Stephen J
dc.contributor.authorKagale, Sateesh
dc.contributor.authorClarke, Wayne E
dc.contributor.authorTown, Chris D
dc.contributor.authorNixon, John
dc.contributor.authorKrishnakumar, Vivek
dc.contributor.authorBidwell, Shelby L
dc.contributor.authorDenoeud, France
dc.contributor.authorBelcram, Harry
dc.contributor.authorLinks, Matthew G
dc.contributor.authorJust, Jérémy
dc.contributor.authorClarke, Carling
dc.contributor.authorBender, Tricia
dc.contributor.authorHuebert, Terry
dc.contributor.authorMason, Annaliese S
dc.contributor.authorPires, J C
dc.contributor.authorBarker, Guy
dc.contributor.authorMoore, Jonathan
dc.contributor.authorWalley, Peter G
dc.contributor.authorManoli, Sahana
dc.contributor.authorBatley, Jacqueline
dc.contributor.authorEdwards, David
dc.contributor.authorNelson, Matthew N
dc.contributor.authorWang, Xiyin
dc.contributor.authorPaterson, Andrew H
dc.contributor.authorKing, Graham
dc.contributor.authorBancroft, Ian
dc.contributor.authorChalhoub, Boulos
dc.contributor.authorSharpe, Andrew G
dc.date.accessioned2015-09-24T16:40:18Z
dc.date.available2015-09-24T16:40:18Z
dc.date.issued2014-06-10
dc.identifier.citationGenome Biology. 2014 Jun 10;15(6):R77
dc.identifier.urihttp://dx.doi.org/10.1186/gb-2014-15-6-r77
dc.identifier.urihttp://hdl.handle.net/10724/32625
dc.description.abstractAbstract Background Brassica oleracea is a valuable vegetable species that has contributed to human health and nutrition for hundreds of years and comprises multiple distinct cultivar groups with diverse morphological and phytochemical attributes. In addition to this phenotypic wealth, B. oleracea offers unique insights into polyploid evolution, as it results from multiple ancestral polyploidy events and a final Brassiceae-specific triplication event. Further, B. oleracea represents one of the diploid genomes that formed the economically important allopolyploid oilseed, Brassica napus. A deeper understanding of B. oleracea genome architecture provides a foundation for crop improvement strategies throughout the Brassica genus. Results We generate an assembly representing 75% of the predicted B. oleracea genome using a hybrid Illumina/Roche 454 approach. Two dense genetic maps are generated to anchor almost 92% of the assembled scaffolds to nine pseudo-chromosomes. Over 50,000 genes are annotated and 40% of the genome predicted to be repetitive, thus contributing to the increased genome size of B. oleracea compared to its close relative B. rapa. A snapshot of both the leaf transcriptome and methylome allows comparisons to be made across the triplicated sub-genomes, which resulted from the most recent Brassiceae-specific polyploidy event. Conclusions Differential expression of the triplicated syntelogs and cytosine methylation levels across the sub-genomes suggest residual marks of the genome dominance that led to the current genome architecture. Although cytosine methylation does not correlate with individual gene dominance, the independent methylation patterns of triplicated copies suggest epigenetic mechanisms play a role in the functional diversification of duplicate genes.
dc.titleTranscriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea
dc.typeJournal Article
dc.date.updated2015-09-22T12:01:39Z
dc.language.rfc3066en
dc.rights.holderParkin et al.; licensee BioMed Central Ltd.


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