Natural epigenetic polymorphisms lead to intraspecific variation in Arabidopsis gene imprinting.
Bottom Line: Imprinting variability could contribute to observed parent-of-origin effects on seed development.We successfully predicted imprinting in additional strains based on methylation variability.We conclude that there is standing variation in imprinting even in recently diverged genotypes due to intraspecific epiallelic variation.
Affiliation: Whitehead Institute for Biomedical Research, Cambridge, United States.Show MeSH
Mentions: (A) Average CG methylation in embryo and endosperm for the union set of PEGs, MEGs and all genes. (B) Percentage of genes with TE at indicated position. (C) Distribution of TEs and 24 nt small RNAs around endosperm imprinted MEGs (n = 85) and PEGs (n = 29) identified in at least two of three sets of reciprocal crosses. TE heatmap indicates the presence or absence of TEs according to TAIR10 annotation. 24 nt small RNA data is from ColxCvi whole seeds. Other libraries showed the same overall small RNA profile. Values were calculated in 200 nt windows extending 2 kb upstream and downstream from the 5′ and 3′ ends of the gene and 1 kb into the gene body. White indicates the absence of data. Figure 5—figure supplement 1 shows H3K27me3 profiles around imprinted genes in vegetative tissues. Figure 5—figure supplement 2 and Figure 5—figure supplement 3 further explore the distribution and allelic contribution of small RNAs associated with imprinted genes.
Affiliation: Whitehead Institute for Biomedical Research, Cambridge, United States.