Fig. 3
Characterization of “Recital” responses to the three strains of contrasting aggressiveness. A The structure of the FHB-responsive gene set is represented by an upset plot describing the number of genes significant for one (“Strain specific”-responsive gene set), two (“Strain accessory”-responsive gene set), or three (“All Strain”-responsive gene set, blue bar) strain-control comparisons. B The variation amplitudes of gene expression for each strain-control comparison at 48 hpi, 72 hpi, and 96 hpi were represented with spider charts. Spider chart describes the log2(FC) between each strain (MDC_Fg1 in pink, MDC_Fg13 in yellow and MDC_FgU1 in green) and control. Colored points indicate the proportion of genes belonging to each of the nine log2(FC) ranges. Extreme values were the maximum and minimum log2(FC) of all time points and strain control comparisons. A negative log2(FC) indicates a lower expression level in the infected condition than in the control one, and a positive log2(FC) indicates a higher expression level in infected condition than in the control one. Spider plots are composed of two grid circles, the middle grid circle indicating 25% and the maximum grid circle indicating 50%. C “Recital” experimental conditions were classified according to the “All strain”-responsive gene set. PLS-DA method was applied on the 26,779 genes responsive to the three F. graminearum strains to predict the strain-infection progress combinations. The plots of the individuals extracted from the PLS-DA are represented on the two first components. For each condition, confidence ellipses are plotted to highlight discrimination strength (level set to 95%). D The complexity of the regulation network controlling “Recital” FHB responses is illustrated by a directional network plot. Network was built using TF genes as regulators of all FHB responsive genes, meaning that some TF genes are targets of other TFs, the master regulators. The figure shows the targets of one master regulator (yellow node), TraesCS1B02G318800. Direct edges connecting the master regulator to its targets are indicated by yellow arrow. Master regulator’s target genes are indicated in blue for the TF genes and in red for the not TF genes. Blue arrows represent the direct edges between the regulated TF genes and their own targets