This study evaluates the transcriptome of Arabidopsis thaliana seedlings chronically exposed to the hormone Methyl Jasmonate (MeJA) or to the bacterial elicitor flg22 (a 22-amino acid peptide from flagellin). Treatments were performed under high and low phosphate availability using wild-type Col-0 plants and the phr1 phl1 mutant. Overall design: Arabidopsis seeds (wild-type Col-0 and the phr1 phl1 mutant) were germinated on Johnson medium (1 % sucrose) containing 1 mM Pi (in the form of KH2PO4) for 7 days in the vertical position and then transferred to 1 mM Pi and 5 µM Pi media containing 1 % sucrose either alone or supplemented with 10 µM MeJA or 1 µM flg22. Whole seedlings were harvested 12 days after the transferring. Plants were grown in a growth chamber in a 15-h dark/9-h light regime (21°C day /18°C night). The experiment includes a total of six biological replicates from two independent experiments per condition.