Supplementary tables from the PhD thesis "Towards Deciphering the Wheat-Tan Spot Pathosystem Through a Systems Biology Approach"

Background: Tan Spot is a yield-reducing foliar disease caused by the fungus Pyrenophora tritici-repentis (Ptr), occurring in various cereals but most importantly in wheat. Eight parents of a wheat MAGIC (multiparent advanced generation inter-cross) population and two Brazilian commercial cultivars (namely Fundacep Horizonte and PF 080719) were screened against ToxA-producing Ptr strains. Results: The lines exhibited differential levels of resistance, with the parental line Hereward being the most susceptible, and Robigus the most resistant. Assessing RNA-seq data acquired from Robigus and Hereward at 0, 48, and 96 h post-inoculation with Ptr (or mock-inoculated), identified differentially expressed genes (DEG) which could be associated with significantly enriched pathways associated with cytoskeleton reorganization and actin polymerisation (amongst others) exclusively in Robigus (Supplementary Tables 3.1-3.2). Untargeted metabolomics, using flow infusion electrospray ionisation mass spectrometry (FIEMS) was performed on the same samples from Robigus and Hereward. The statistical analysis and functional annotation of differentially accumulated metabolites (DAMs) are presented in Supplementary Tables 3.3. Correlation-based integration of transcriptomics (DEGs) and metabolomics (DAMs) provided further evidence of cell wall modifications and chitinase activity in Robigus, whereas downregulated energy-related pathways were found enriched in Hereward (Supplementary Table 3.4). An unsupervised co-expression network analysis (WGCNA) revealed a common set of reactions triggered by Ptr in Robigus and Hereward, which included the activation of pathogenesis-related proteins and enzymes involved in the biosynthesis of flavonoids (Supplementary Table 4.1-4.2). Metabolomic analyses of flag leaves showed that only 7.9% of total responses were shared between both Brazilian plants, and each cultivar had a unique set of metabolic responses to Ptr infection (Supplementary Table 5.1). These changes were summarised with enrichment of biosynthesis of flavonoids, and bioenergetic metabolism, among others (Supplementary Table 5.2).