Comparative analysis towards the identification of genome wide characteristics of a beneficial fungal endophyte-Raw data

illumina/Nanopore reads for genome assembly of FsK S3,S9: Biological replicates for FsK paired end illumina data FsK_nanopore_reads_hc.fasta.gz: reads that passed the quality threshold of the nanopore sequencer hc: highest gzip compression level(9) Fusarium solani strain K (FsK) is an endophytic fungus with a wide host range that protects its host plants against pathogens and environmental stresses. In this study, we performed de novo genome sequencing and annotation, while a phylogenomic analysis confirmed the placement of FsK within the Fusarium solani species complex (FSSC). A comprehensive comparative genomics analysis was conducted with species that can colonize tomato as a common host, namely the beneficial basidiomycete Serendipita indica and the arbuscular mycorrhizal fungus Rhizophagus irregularis, both model symbiotic organisms in their respective fungal divisions, as well as the closely pathogenic Fusarium vanettenii 77-13-4. To identify mechanisms of early-stage FsK-plant interaction and fungal adaptation, comparative analysis of secreted effectors, carbohydrate-active enzymes and secondary metabolite clusters, was performed. FsK specific genes implicated in DNA repair and iron acquisition via ferrirhodin synthesis, highlighting adaptation to stress conditions and possible mutualistic functions with plant hosts were identified. These findings provide valuable insights into the genomic determinants of fungal lifestyles within the FSSC and establish a foundation for future functional studies on fungal-plant interactions in agricultural contexts.