Fig. 1

Chromatin modifications and accessibility on D. discoideum display stage-specific patterns for H3K4me3, H3K27ac, H3K4me1, and chromatin architecture. a Cartoon diagram representing the different stages and approximate time required to achieve each stage. Colors used in this diagram are used throughout the figures to represent specific stages. b Heatmaps of ATAC-seq merged peaks from 5 replicates of each of the stages of Dictyostelium (V1, V2, V3, VA, and VB; S1, S2, S3, SA, and SB; M1, M2, M3, MA, and MB; F1, F2, F3, FA, and FB) 1500 basepairs upstream or downstream of the TSS. c Metagene analysis of ATAC-seq experiments performed at different stages shows that the unicellular stage of D. discoideum (vegetative: shown in blue line) displays greater chromatin accessibility 250 basepairs downstream of the TSS than multicellular stages (streaming: shown in purple line, mound: shown in green line, fruiting body: shown in orange line). d PCA analysis shows the open regions in vegetative D. discoideum are separate from those in the streaming, mound, and fruiting stages. A and B mark replicates from frozen samples while 1, 2, 3, and 4 mark replicates from fresh samples. e A heatmap of the ATACseq data at different life cycle stages shows distinct accessible regions in the multicellular stages relative to the unicellular stage. f PCA of ChIPseq analyses of H3K4me3, H3K27ac, and H3K4me1 reveals that H3K4me3, H3K27ac, and H3K4me1 are sufficient to distinguish unicellular from multicellular D. discoideum. g Heatmaps show distinct chromatin modification patterns for the localization of H3K4me3, H3K27ac, and H3K4me1 in unicellular (vegetative: VA and VB) and multicellular (streaming: SA and SB, mound: MA and MB, and fruiting body: FA and FB) stages. H3K36me3 did not display distinct patterning (Additional file 1: Figure S6D) and H3K27me3, H3K9me3, and H3 were unable to produce heat maps due to either poor antibody specificity or similar localization occurrences