S1A Table Raw phenotypic data for virulence (measured as the amount of necrotic lesion area) and reproduction (pycnidia density within lesion area) on 12 wheat cultivars from 145 Zymoseptoria tritici isolates.

S1B Table: Raw phenotypic data for mean colony area per plate and mean grey value per plate measured in different temperatures and in presence/absence of fungicide from 130 Zymoseptoria tritici isolates. "NA" indicates that no data were obtained due to no colony growth or contamination. S1C Table: Description of 145 Zymoseptoria tritici isolates with their corresponding sampling location, year and NCBI SRR Run ID for the whole genome sequence data used in this study. S1D Table: Number of single nucleotide polymorphisms (SNPs) called on 19 reference genomes at 5% minor allele frequency and 80% genotyping rate for 145 Zymoseptoria tritici isolates. S1E Table: List of phenotypic traits used for GWAS in this study. S1F Table: Number of significant SNP associations above the 5% Bonferroni significance threshold for 20 traits comprising pathogen virulence, reproduction and environmental stress mapped in 19 reference genome SNP datasets. S1G Table: Summary statistics of genome-wide SNPs passing the Bonferroni significance threshold of 5% for specific traits identified 19 reference genome SNP datasets. SNPs are ordered according to the smallest P-value. S1H Table: List of genes with their predicted protein functions in close proximity (Zymoseptoria tritici isolates. S1I Table. List of genes with their predicted protein functions in close proximity ( (XLSX)