Table 1 Summary of AgriGO analysis of root transcriptomes of resistant and susceptible S. phureja genotypes

Resistant vs Susceptible (control point, 0 hpi)

Oxidation reduction and associated terms.

Signaling, phosphorylation and associated terms. Oxidoreductase activity (small group of DEGs)

Resistant at 24 hpi (water) vs Resistant before inoculation

Regeneration after wounding (cell cycle, mitosis, etc.)

Signaling, protein modification and associated terms probably reflecting metabolism reprogramming toward the stress response.

Resistant at 24 hpi (GPCN) vs Resistant before inoculation

Variety of stress-response related terms (responses to stimuli, oxidative stress, peroxidase activity, glycosylases, endopeptidase inhibitors, etc.)

Photosynthesis-related genes (probably related to organelle division in the frame of cell division and elongation processes).

Signaling, protein modification and associated terms probably reflecting metabolism reprogramming toward the stress response.

Resistant at 72 hpi (water) vs Resistant at 24 hpi (water)

Small changes in spectrum of oxidoreductases. Nothing special at a large scale.

Reproduction, oxidation reduction, small changes in spectrum of oxidoreductases. Nothing special at a large scale.

Resistant at 72 hpi (GPCN) vs Resistant at 24 hpi (GPCN)

Variety of stress-response related terms (oxidation reduction, peroxidase activity, glycosylases, endopeptidases, proteases, ribonucleases, etc.)

Cell wall biogenesis (cell division, elongation of cells during regeneration, or syncytium development)

Photosynthesis, significant changes in metabolic processes, changes in oxidoreductases spectra.

Susceptible at 24 hpi (water) vs Susceptible before inoculation (0 hpi)

Response to various stimuli, cell cycle.

Photosynthesis (probably related to plastid division in the frame of tissue regeneration after wounding or some changes in plastid metabolism).

Signaling, protein modification and associated terms. Downregulation of a wide variety of regulatory and metabolic processes possibly reflecting metabolism reprogramming toward the stress response.

Susceptible at 24 hpi (GPCN) vs Susceptible before inoculation (0 hpi)

Cell cycle and related terms. Response to stimuli.

Signal transduction, downregulation of a wide variety of regulatory and metabolic processes.

Susceptible at 72 hpi (water) vs Susceptible at 24 hpi (water)

Cell cycle and related terms (mitosis, microtubule-based movement, etc.). Changes in spectra of oxidoreductases and hydrolyses activities, probably associated with metabolic reprogramming.

Small changes in signaling and oxidoreductases – associated activities.

Susceptible at 72 hpi (GPCN) vs Susceptible at 24 hpi (GPCN)

Cell cycle-related terms. Terms related to activation of metabolic processes (positive regulations of variety of activities). Various peptidase activities.

Small changes in oxidoreductases – associated activities, signal transduction, response to stimuli.

Resistant at 24 hpi (water) vs Susceptible at 24 hpi (water)

Cell cycle related terms. Response to stimuli. Stress response related terms (peroxidase activity, oxidoreductase activity, hydrolase activities). Plastid related terms. Higher expression level of some general metabolism-related genes (e.g., catalytic activity)

Nothing specific at large scale (e.g., photosynthesis related terms, response to stimuli, etc.)

Resistant at 72 hpi (water) vs Susceptible at 72 hpi (water)

Oxidation reduction related terms. Nothing special at a large scale.

Nothing specific at large scale (e.g., photosynthesis related terms)

Resistant at 24 hpi (GPCN) vs Susceptible at 24 hpi (GPCN)

Oxidation reduction, oxidoreductases – associated terms. Higher expression levels of photosynthesis related genes (probably reflecting changes in plastids). Peptidase inhibitor activity.

Nothing specific at large scale. Some changes in oxidoreductases – associated activities

Resistant at 72 hpi (GPCN) vs Susceptible at 72 hpi (GPCN)

Nothing specific at large scale. Some changes in oxidoreductases – associated activities. Peptidase inhibitor activity.

Nothing specific at large scale. Some changes in photosynthesis and oxidoreductases – associated activities, some peptidase inhibitor activities.