1. Figure S1 Figure S1. Effect of MeJA on spore germination of M. oryzae. The data presented were the means (± standard error) of spore germination from three independently biological experiments, which were examined by analysis of variance (ANOVA) to detect significant differences between means and those differing significantly (p<0.05) were compared using Duncan multiple range test (DMRT) at the same (5%) probability level using SPSS (Statistical Package for the Social Science) software package (Release v14.0; SPSS Company, USA). No significant difference (P <0.05) in spore germination was found. Supplementary materials for Li et al “Comparative proteomic analysis of methyl jasmonate-induced defense responses in different rice cultivars” CK 0.01 mM 0.1 mM 0.5 mM 1 mM

2. Figure S2. Effect of MeJA on mycelial growth of M. oryzae. Fungal colonies were cultured on YS medium amended with 0 (ck), 0.01, 0.1, 0.5, or 1 mM MeJA. Data bars were the means (± standard error) of nine replicates. Statistical analysis was carried out using the SPSS software. No significant difference (P <0.05) in colony diameters was found. Figure S2

3. A CO39 C101LAC CK-24 hMeJA-24 h CK-24 h MeJA-24 h Figure S3

4. CO39 C101LAC CK-48 hMeJA-48 h CK-48 h MeJA-48 h B Figure S3. Close-up views of the regions of 2-DE gels showing differentially regulated protein spots in two rice cultivars at 24 h (A) and 48 h (B) after treatment with 0.1 mM MeJA. The control plants were treated with water. Arrows indicate proteins whose expression changed in response to MeJA treatment. The relative locations of these protein spots were indicated in Figure 2.

5. Figure S4 A B Figure S4. Identification of spot 32 by MS. The protein excised from CBB-staining gels was digested with trypsin, and the resulting peptides were analyzed using the 4700 Proteomic Analyzer. A, The MS spectra. The matched peptides and their corresponding peaks are listed in the map. The ion 2202.272 marked with an asterisk was analyzed by MS/MS. B, MS/MS spectra of ion 2202.272. The corresponding peptide sequence is shown. The protein was identified as cinnamyl alcohol dehydrogenase 3 after database searching. ﹡ HSIYPLVPGHEIAGVVTEVGK

6. 2 1819 20 218 19 20 Figure S5 Figure S5. Phosphorylation modification analysis of rice APN protein. The same gel was stained with phospho-specific Pro-Q Diamond fluorescent dye (A) and subsequently with Coomassie Blue G-250 dye (B). Close-up views of the regions of the same 2-DE gel showed phosphorylated protein APN in rice cultivar C101LAC at 48 h after treatment with 0.1 mM MeJA. Spot numbers correspond to the spots identified in Table 2. A B

7. Figure S6. Relative lignin content of rice leaves in response to 0.1 mM MeJA. Relative lignin content was determined by the thioglycolic acid procedure and expressed as A 280 per 0.1 g rice leaves in 2.5 mL 0.5 M NaOH. Each point represents the mean of nine determinations in three experiments.