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Fig. 5 | Genome Biology

Fig. 5

From: MAPK-triggered chromatin reprogramming by histone deacetylase in plant innate immunity

Fig. 5

Flagellin recognition modulates the genome-wide H3K9 acetylation landscape. a Flagellin triggers hyper- and hypo-acetylation of two different peak clusters. H3K9ac ChIP-seq data from mock- and flg22-treated plants were compared using seqMINER. From these analyses, three classes of peaks emerged: classes I and II contain hyper- and hypo-acetylated peaks, respectively, after flg22 treatment, and the third class contains peaks that do not change. b Tag read densities of class I H3K9ac peaks are stronger upon flg22 treatment. The graph represents the average of tag reads relative to the H3K9 peak summit positions for all the peaks from cluster I. c GO analysis of H3K9 flg22 hyper-acetylated genes. Genomic annotation of the H3K9 hyper-acetylated peaks was performed using the GPAT. GO data were extracted with the Agrigo GO Analysis Toolkit. A histogram of the values highlights the enrichment of the GO classes. P values for each enriched class are indicated (pv). d H3K9 flg22 hyper-acetylated genes mainly are induced by biotic or elicitor stresses. The gene expression of flg22-induced H3K9 hyper-acetylated genes was analyzed using publicly available microarrays data and the Genevestigator software [60]. Each column represents a gene from the list and each line represents a particular microarray experiment. Red, green, and black colors indicate an upregulation, downregulation, or no change of gene expression, respectively. e Tag read densities of class II peaks are stronger in mock conditions. The graphic represents the average of tag reads relative to the H3K9 peak summit positions for all the peaks from cluster II. f GO analysis of H3K9 flg22 hypo-acetylated genes. Genomic annotation of the H3K9 hypo-acetylated peaks was performed as in Fig. 5c. A histogram highlights the enrichment of the GO classes. P values for each enriched class are indicated (p-v). g H3K9 flg22 hypo-acetylated genes are repressed mainly by biotic or elicitor stresses. The gene expression of flg22-induced H3K9 hypo-acetylated genes was analyzed and displayed as in (d)

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