Additional file 2: Tables S1-S7. of From yeast to hypha: defining transcriptomic signatures of the morphological switch in the dimorphic fungal pathogen Ophiostoma novo-ulmi

Table S1: qRT-PCR primers for reference genes and tested genes. Table S2: Results of BLASTp analysis of Saccharomyces cerevisiae dimorphism related proteins with Ophiostoma novo-ulmi genome. The last column indicates if the homologous proteins are orthologs (results of reciprocal best blast hits (RBH) using tblastx on exon sequences for each gene of the two species, e-value = 1x10^3 and word size = 5). Table S3: Normalized read counts for the 7605 genes analyzed using EdgeR and maSigPro in R. 1-3: 0 h; 4-6: 2 h; 7-9: 4 h; 10-12: 6 h; 13-15: 10 h; 16-18: 27 h. DEGs : Differentially Expressed Genes detected using maSigPro, FDR â ¤ 0.05. For each DEG, the number of the STEM profile associated is indicated. Nigg et al. 2015: genes overexpressed in Yeast or Mycelium growth phases in the study of Nigg and collaborators in 2015 [47]. Table S4: Description of the 815 genes found in the STEM profile 39. Values are means of differential gene expressions for each time compared to 0 h.Table S5: Enriched biological processes in the STEM profile 39 containing at least 4 DEGs genes after filtration using GO Trimming and REVIGO. GO term in bold are parent term retained as name for a regroupment. Table S6: Description of the 256 genes found in the STEM profile 8. Values are means of differential gene expressions for each time compared to 0 h. Table S7: Enriched biological processes in the STEM profile 8 containing at least 4 DEGs genes after filtration using GO Trimming and REVIGO. GO term in bold are parent term retained as name for a regroupment. (XLSX 1029Â kb)