Hidden variation in polyploid wheat drives local adaptation

Wheat has been domesticated into a large number of agricultural environments and has the ability to adapt to diverse environments. To understand this process, we survey genotype, repeat content, and DNA methylation across a bread wheat landrace collection representing global genetic diversity. We identify independent variation in methylation, genotype, and transposon copy number. We show that these, so far unexploited, sources of variation have had a significant impact on the wheat genome and that ancestral methylation states become preferentially “hard coded” as single nucleotide polymorphisms (SNPs) via 5-methylcytosine deamination. These mechanisms also drive local adaption, impacting important traits such as heading date and salt tolerance. Methylation and transposon diversity could therefore be used alongside SNP-based markers for breeding.

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  • Name: Gardiner, Laura-Jayne, Type: Corresponding Author,
  • Name: Joynson, Ryan, Type: Author,
  • Name: Omony, Jimmy, Type: Author,
  • Name: Rusholme-Pilcher, Rachel, Type: Author,
  • Name: Olohan, Lisa, Type: Author,
  • Name: Lang, Daniel, Type: Author,
  • Name: Bai, Caihong, Type: Author,
  • Name: Hawkesford, Malcolm, Type: Author,
  • Name: Salt, David, Type: Author,
  • Name: Spannagl, Manuel, Type: Author,
  • Name: Mayer, Klaus F.X., Type: Author,
  • Name: Kenny, John, Type: Author,
  • Name: Bevan, Michael, Type: Author,
  • Name: Hall, Neil, Type: Author,
  • Name: Hall, Anthony, Type: Author,
Maintainer Email
Article Host Type publisher
Article Is Open Access true
Article License Type cc-by
Article Version Type publishedVersion
Citation Report https://scite.ai/reports/10.1101/gr.233551.117
DFW Organisation EI
DFW Work Package 4
DOI 10.1101/gr.233551.117
Date Last Updated 2019-06-19T17:49:39.000996
Evidence open (via page says license)
Journal Is Open Access false
Open Access Status hybrid
PDF URL http://genome.cshlp.org/content/28/9/1319.full.pdf
Publisher URL https://doi.org/10.1101/gr.233551.117