Fig. 7: Impact of the OsChz1 loss on H2A.Z enrichment at the genome-wide level.
From: OsChz1 acts as a histone chaperone in modulating chromatin organization and genome function in rice
a Genome-wide H2A.Z occupancy profiles in wild-type (WT) and oschz1-1. The plots were generated from 1 kb upstream of the TSS to 1 kb downstream of the TTS of genes analyzed by ChIP-seq. Signal for H2A.Z is a merge from two biological replicates. Statistic significances were determined by single-end Welch two-sample t-test: ****p = 1.01 × 10−5. b Heatmap showing H2A.Z levels upstream TSS, along gene body and downstream TTS of genes in WT and oschz1-1. Genes were divided into nine classes according to the levels of H2A.Z in WT at TSS (low, medium, and high) and gene body (low, medium, and high). Shown are corresponding H2A.Z ratio plots for WT and WT over oschz1-1. c, d Boxplots showing correlation between gene length and H2A.Z levels (c), gene expression in FPKM, and H2A.Z levels (d) at TSS and within gene body in WT (n = 29,422 H2A.Z-enrichment genes). Center line indicates the median, upper and lower bounds represent the 75th and the 25th percentile, respectively, whiskers indicate the minimum and the maximum. e Intersection comparisons of H2A.Z-depleted genes (right) and upregulated genes (left) in oschz1-1 with the nine classes of genes characterized by their distribution of H2A.Z in WT (middle). Labels H, M, and L indicate for high, medium, and low levels of H2A.Z at TSS (first letter) and gene body (second letter), respectively. f Venn diagram for the overlap of genes with reduced nucleosome occupancy and genes with decreased H2A.Z in oschz1-1. Significance level of the intersection was examined by single-end Fisher’s exact test: ****p = 2.01 × 10−6. g Genome-wide H3 occupancy profiles in wild-type (WT) and oschz1-1 (top graph) and that of H2A.Z normalized with H3 (bottom graph). The profiles were generated from 1 kb upstream of TSS to 1 kb downstream of TTS along genes. Statistic significances were determined by single-end Welch two-sample t-test: ****p = 4.09 × 10−15. Source data underlying b, c, d, and f are provided as a Source Data file.
