Extended Data Fig. 4: Unlike TgSNF2L, TgSNF2h promotes chromatin access for HDAC3/MORC and modulates gene expression across developmental stages.
From: An ISWI-related chromatin remodeller regulates stage-specific gene expression in Toxoplasma gondii
a. The heat map, generated using iDEP.96 with mean-centered, log2-transformed data and k-means clustering (Pearson correlation), reveals gene expression patterns across in vivo stages -merozoites, enteroepithelial stages (EESs) 1 to 5, tachyzoites, sporozoites, and cysts25. Patterns in in vitro MORC KD12, TgSNF2h KD, and TgRFTS and TgSNF2L KD are also shown. Transcript abundance, displayed as log2[FC] from log-transformed mean TPM of three replicates, highlights upregulation (magenta) and downregulation (green). b. Heat map and profile analysis display ChIP peak intensities for TgSNF2L and HDAC3 in untreated (UT) and TgSNF2L-depleted parasites. K-means clustering in the UT sample shows enrichment of TgSNF2L and HDAC3 at TSS in cluster 1 genes with a significant spreading of TgSNF2L upstream and downstream. c. Venn diagram compares TgSNF2L/TgSNF2h promoter peaks, clustered by TSS-centered ChIP-seq signals. d. IGB screenshots display ChIP-seq enrichment for MORC and TgSNF2h after TgSNF2h depletion, alongside HDAC3 and TgSNF2L enrichment following TgSNF2L depletion, with read density shown on the y-axis.
