Sep 12, 2018

DNA methylation footprints during soybean domestication and improvement

Genome Biology
Yanting ShenZhixi Tian

Abstract

In addition to genetic variation, epigenetic variation plays an important role in determining various biological processes. The importance of natural genetic variation to crop domestication and improvement has been widely investigated. However, the contribution of epigenetic variation in crop domestication at population level has rarely been explored. To understand the impact of epigenetics on crop domestication, we investigate the variation of DNA methylation during soybean domestication and improvement by whole-genome bisulfite sequencing of 45 soybean accessions, including wild soybeans, landraces, and cultivars. Through methylomic analysis, we identify 5412 differentially methylated regions (DMRs). These DMRs exhibit characters distinct from those of genetically selected regions. In particular, they have significantly higher genetic diversity. Association analyses suggest only 22.54% of DMRs can be explained by local genetic variations. Intriguingly, genes in the DMRs that are not associated with any genetic variation are enriched in carbohydrate metabolism pathways. This study provides a valuable map of DNA methylation across diverse accessions and dissects the relationship between DNA methylation variation and genetic var...Continue Reading

  • References106
  • Citations8

References

Mentioned in this Paper

Antigens, Differentiation
Study
Biochemical Pathway
Hydrogen sulfite
DNA Methylation [PE]
Crops, Agricultural
Genes
Glycine max
Soybean preparation
MEPE

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