Additional file 1 of GWAS and multi-omics study reveal OsJAR2 associated jasmonate biosynthesis contributes to Southern rice black-streaked dwarf virus resistance in rice

Supplementary Material 1: Table S1: Disease incidence of 195 rice accessions in field trial and artificial inoculation. Table S2: The statistics for RNA sequencing data. Table S3: Known genes involved in Jasmonic acid (JA) biosynthesis pathway in rice. Table S4: The seed genes for reconstructing the TOGCNs. Table S5: Metabolite concentrations in resistant (R91) and susceptible (S1) accessions at 5-, 11-, and 20-Days Post Inoculation (dpi) with SRBSDV. Table S6: Fold change of plant hormones between inoculated and mock plants of R91 and S1. Table S7: The statistics for differential gene expression analysis. Table S8: The statistics for resistant- and susceptible-specific TOGCNs. Table S9: Distribution and rapid response genes in JA biosynthesis pathway in rice. Table S10: Expression profiles of genes involved in JA biosynthesis and metabolic pathways. Table S11: Statistics of JA genes that are upregulated at three different stages under two comparisons: R91+ vs. R91 and S1+ vs. S1. Table S12: Gene expression profiles in JA signaling pathways Table S13: Distribution of edges, genes, TF, and JA enzymatic genes across different sub-networks of resistant (R91+)-specific and susceptible (S1+)-specific TOGCNs. Table S14: Statistics of TFs clustered into the early sub-network of the JA & resistant (R91+)-specific TOGCN. Table S15: Information of genes clustered into the early sub-network of the JA & resistant (R91+)-specific TOGCN. Table S16: Pearson correlation coefficient (r) for predicting the regulatory relationship between OsJAR2, ERF130 and MYB42/85 in resistant (R91+)-specific TOGCN. Table S17: Integrated characterization of candidate genes within qSRBSDV1-1 locus. Table S18: Association of OsJAR2 haplotypes and SRBSDV disease incidence. Table S19: Effect size of OsJAR2 haplotypes on disease incidences.