Figure 4.

Transcriptional profiling to identify Ste12-dependent genes differentially regulated upon nematode induction. (A) MA plots of genome-wide RNA-seq data for different comparisons. The y-axis represents the |betas| value (approximately equivalent to log₂ fold-change) between the indicated strains and corresponding conditions. The x-axis represents the level of expression (transcripts per million, tpm) for each gene averaged between the two conditions. Threshold of differential expression: |betas| ≥ 2, adjusted P-value < 0.05. (B) Venn diagrams displaying the overlap of genes that were differentially expressed in both the ku70 and ku70 ste12 lines in response to nematodes. Upper diagram: overlapping upregulated genes. Lower diagram: overlapping downregulated genes. (C) Venn-diagram illustrating the Ste12-dependent regulon upon nematode induction. The green circle includes transcripts significantly up- and downregulated (|betas| ≥2, adjusted P-value < 0.05) only in the ku70 line upon nematode induction (from Figure 4B). The red circle represents transcripts not differentially expressed (|betas| < 1) for the ku70 ste12-control vs ku70-control comparison. (D) Heatmap displaying the Ste12-dependent regulon in terms of expression |betas| values.