Fig 1.
Scheme of the data mining from gene expression to the identification of the main biological processes from V/2xRL and V/4xRL.
A. Venn diagram from A. thaliana proteins orthologous of the V/2xRL and V/4xRL sequences differentially expressed [20]. Bold-italic and normal style indicate proteins corresponding to up-regulated and down-regulated genes, respectively. B. PPI network characteristics. C. Main PPI network corresponding to the union of the V/2xRL and V/4xRL specific networks. D. Venn diagram of the V/2xRL and V/4xRL specific PPI networks. The main metabolic processes were indicated with the corresponding e-value and amount of associated proteins (under parenthesis).
Fig 2.
Functional clusters obtained from the general PPI network presented in the Fig 1C.
Only the functions corresponding to the majority of the proteins involved were indicated. A. Cellular processes including protein catabolism and proteolysis ubiquitin-dependent. B. Metabolic processes including oxidative stress and photosynthesis. C. Phosphorylation and signaling pathway, and trehalose metabolic process. D. Nucleic metabolic process, transcription and gene expression, and RNA processing. E. Translation initiation and response to chemical, wounding and endogenous and exogenous stimulus. F. Lipid metabolic process, steroid, sterol and terpenoid biosynthesis processes. G. Protein metabolic process and translation. H. Response and signaling to cytokinin, regulation of ethylene mediated signaling pathway, negative regulation of two-component signal transduction system (phosphorelay). I. Cellular organization, regulation of cell cycle, membrane fusion and cellular component assembly, and transcription initiation. J. Organelle organization and glycolipid and galactolipid biosynthetic processes.
Fig 3.
Model of metabolic pathways of V/2xRL subjected to drought according to transcriptomic and interactomic data.
Numbers 1 to 6 correspond to cytoplasm, chloroplast, endoplasmic reticulum, nucleus, mitochondrion, vacuole, respectively. Color scale represents the gene fold change: repression is indicated in red scale while overexpression is indicated in blue scale.
Fig 4.
Model of metabolic pathways of V/4xRL subjected to drought according to transcriptomic and interactomic analysis.
Numbers 1 to 6 correspond to cytoplasm, chloroplast, endoplasmic reticulum, nucleus, mitochondrion, vacuole, respectively. Color scale represents the gene fold change: repression is indicated in red scale while overexpression is indicated in blue scale.
Fig 5.
Scheme of the scion response to drought in each scion/rootstock combination (V/2xRL vs V/4xRL).
+++: presence/high level;- - -: absence/low level; ≠: differential level.
Table 1.
List of the sequences involved in the main metabolic processes described in the Figs 3 and 4. ID: Accession number.