Phenotypic and H2Bub epigenomic changes during de-etiolation.

<p>(A) Experimental design for de-etiolation experiments. Wild-type and <i>hub1-3</i> plants were grown in darkness for 5 days or shifted to light for the last 1 or 6 h for transcriptome and ChIP-chip analyses. (B) Representative phenotypes of plants grown in darkness and exposed to light for the indicated times (<i>left panels</i>). The right panels illustrate the phenotypes of seedlings transferred back to darkness for 24 h after 1 or 6 h of exposure to light. (C) Venn diagram giving the number of H2Bub-marked genes in each growth condition. (D) Venn diagram giving the number of genes that gain <i>de novo</i> or show a loss of the H2Bub mark during the 6 h window. Determination of the corresponding numbers is detailed in <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1002825#pgen.1002825.s004" target="_blank">Figure S4</a>. (E) Genome browser screenshot showing H2Bub levels at genomic loci displaying the light-induced genes <i>HCF173</i>, <i>TZP</i> and <i>RBFa</i>. Colored bars represent significant signals for H2Bub-enriched Nimblegen chip tiles normalized from two biological replicates.