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. 2019 Aug 16;8:e47835. doi: 10.7554/eLife.47835

Figure 4. INO80 controls ethylene-induced H2A.Z eviction dynamics.

(A) (B) Aggregated H2A.Z profile of all Arabidopsis genes (TAIR10) in Ler, ein6-1, een-1, ein6-1 een-1 (A) and Col-0, ref6-1, een-2, ref6-1 een-2, ino80-1, ref6-1 ino80-1, arp5-1 and ref6-1 arp5-1 (B) seedlings from 1 kb upstream to 2 kb downstream of the TSS determined by ChIP-seq. (C) (D) ET-induced H2A.Z eviction dynamics are shown as aggregated H2A.Z profiles of 3-day-old etiolated Ler, een-1, Col-0 and ino80-8 seedlings treated for 4 hr with ET gas. Two biological H2A.Z ChIP-seq replicates for Ler and een-1 (C) and one for Col-0 and ino80-8 (D) were analyzed. Profiles visualize the log2 fold change between the respective air and ET-treated H2A.Z ChIP-seq samples from 1 kb upstream to 2 kb downstream of the TSS. 1076 genes that show a robust H2A.Z eviction in response to ET in all replicates (≥1.3 fold SICER comparison, air vs 4 hr ET) are shown as solid lines whereas all genes (TAIR10) are shown as dashed lines.

Figure 4.

Figure 4—figure supplement 1. EEN binds to gene bodies of environmentally responsive genes.

Figure 4—figure supplement 1.

(A) Aggregated EEN and H2A.Z profile of the 1000 top-ranked genes that show EEN binding from 1 kb upstream to 2 kb downstream of the TSS. Two independent EEN ChIP-seq datasets (Col-0 35S:EEN) as well as one Col-0 H2A.Z ChIP-seq dataset (Col-0) is shown. (B) Pie chart illustrates the genomic distribution of EEN binding sites. (C) Gene ontology enrichment analysis of the 1000 top-ranked EEN targets using the functional annotation tool DAVID. (D) Heatmaps show ET-induced H2A.Z eviction dynamics in 3-day-old etiolated Ler, een-1, Col-0 and ino80-8 seedlings treated for 4 hr with ET gas. The heatmaps correspond to the aggregate profiles in Figure 4C and D. Heatmaps visualize the log2 fold change between the respective air and ET-treated H2A.Z ChIP-seq samples from 1 kb upstream to 2 kb downstream of the TSS. (ET) indicates that the dynamics of 1076 genes with a robust H2A.Z eviction in response to ET in all replicates (≥1.3 fold SICER comparison, air vs 4 hr ET) is shown whereas (all) indicates that the dynamics of all Arabidopsis genes is shown.