Hidden variation in polyploid wheat drives local adaptation

Gardiner, Laura-Jayne, Joynson, Ryan, Omony, Jimmy, Rusholme-Pilcher, Rachel, Olohan, Lisa, Lang, Daniel, Bai, Caihong, Hawkesford, Malcolm, Salt, David, Spannagl, Manuel
et al (show 5 more authors) (2018) Hidden variation in polyploid wheat drives local adaptation. GENOME RESEARCH, 28 (9). pp. 1319-1332.

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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.

Item Type: Article
Uncontrolled Keywords: Triticum, DNA Transposable Elements, Adaptation, Physiological, DNA Methylation, Polyploidy, Genetic Variation
Depositing User: Symplectic Admin
Date Deposited: 14 Feb 2019 15:09
Last Modified: 19 Jan 2023 01:03
DOI: 10.1101/gr.233551.117
Open Access URL: http://www.genome.org/cgi/doi/10.1101/gr.233551.11...
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URI: https://livrepository.liverpool.ac.uk/id/eprint/3032866