Fig. 3.

Function of genes affected by SNPs and SVs. a) Distribution of the gene functions associated with the genes affected by SVs in long-read assemblies when comparing MrC26 with the other 4 isolates. Most of the genes are associated with transposable elements, no homolog in RefSeq database, or no biological function, often related to fungal pathogenicity (Pusztahelyi et al. 2015; Macheleidt et al. 2016). Expression and modulation in the RNA-Seq samples have been also reported, showing that many of the genes related to the secondary metabolism are active, with DE meaning significantly differentially expressed in at least 1 condition, EX meaning expressed in at least 1 condition even if not significantly modulated, and NO meaning not expressed. b) Secondary metabolite clusters found in MrC26 with antiSMASH. Expression and modulation in the RNA-Seq samples have been also reported as long as the presence of SVs in the locus.