Figure 2.

Toyocamycin induces potent time-dependent gene expression changes. YB5 cells were treated with toyocamycin (250 nM) during 2, 10, 24, 48, and 96 h prior to RNA-seq. (A) Heatmap showing gene expression log2 fold change (blue-red scale) between toyocamycin-treated and untreated groups (16,535 genes are shown on the heatmap). The time points at 2 and 10 h are done in duplicates. The time points at 96 h have been done in triplicates and the 24/48 h of treatment have been done with only one replicate. (B) Number of differentially expressed genes (upregulated in red and downregulated in blue, unchanged expression is depicted in grey). After 2 h toyocamycin treatment, 513 genes were downregulated and 24 genes were upregulated. After 10 h toyocamycin treatment, 2299 genes were downregulated and 1999 genes were upregulated. After 24 h toyocamycin treatment, 3651 genes were downregulated and 3387 genes were upregulated. After 48 h toyocamycin treatment, 4377 genes were downregulated and 4449 genes were upregulated. After 96 h toyocamycin treatment, 5061 genes were downregulated and 5050 genes were upregulated. (C) Gene expression variation over time during toyocamycin treatment. (D) Gene enrichment analysis showing RNA regulatory pathways that are downregulated after toyocamycin treatment (2 h).