Arabidopsis chromatin organization displays strong compartmentalization. (A) Immunofluorescence detection of H3K9ac (green) and H3K27me3 (red) histone modifications and DAPI staining (gray) in an isolated Arabidopsis nucleus. (Scale bar) 5 μm. (B) Distribution of immunofluorescence signal intensity in the nucleus. The analysis was performed along the white line shown in the merged image in A. (C) Visualization of the interaction matrix of Hi-C and HiChIP in a specific region of Chromosome 2. H3K9ac ChIP-seq signal (blue peaks) were aligned with the maps to highlight the correlation with HiChIP enriched regions as expected. (D) Visualization of the interaction matrix of Hi-C and HiChIP in a specific region of Chromosome 4. H3K27me3 ChIP-seq signal (red peaks) were aligned with the maps to highlight the correlation with HiChIP enriched regions as expected. (E) Visualization of the interaction matrix of HiChIP data of H3K9ac and H3K27me3 in a specific region of Chromosome 2. Dots showing higher (blue) and lower (red) signals in H3K9ac HiChIP compared to H3K27me3, respectively. ChIP-seq signals of H3K9ac (blue peaks) and H3K27me3 (red peaks) were aligned with the map to highlight the correlation with HiChIP enriched regions.
