The characteristics of parent-of-origin-dependent nucleosomes. (A) The nucleosome levels around the region of parent-of-origin-dependent nucleosomes in endosperm (BM). Blue lines indicate the nucleosome levels around the region of maternally specific-positioned nucleosomes. Red lines indicate the nucleosome levels around the region of paternally specific-positioned nucleosomes. Green lines indicate the nucleosome levels around the region of 2000 random biallelic nucleosomes. Biallelic nucleosomes are nucleosomes that do not deviate significantly from the 2:1 ratio of maternal allele to paternal allele in each reciprocal hybrid. (B) Allele-specific analysis of parent-of-origin-dependent nucleosomes and their first upstream and downstream nucleosomes. The x-axis and y-axis represent the proportion of maternal reads for the nucleosomes that had at least one SNP and had at least 10 allelic reads in both reciprocal hybrids. The green points represent the allelic status of maternal specifically positioned nucleosomes (mat-nucleosomes) and their first upstream and downstream nucleosomes. The blue points represent paternal specifically positioned nucleosomes (pat-nucleosomes) and their first upstream and downstream nucleosomes. (C) The frequency of allele-specific nucleosomes at each base within ±5 kb of mat-nucleosomes (blue lines) or pat-nucleosomes (red lines) is shown. The gray rectangle represents the region of mat-nucleosomes and pat-nucleosomes.
