Genome Sequencing and Assembly of Fungal Isolate FDS-564

Highly purified genomic DNA from the isolate FDS-564 was extracted from fungal mycelium grown in a liquid Potato Dextrose Broth for 5 days at room temperature, filtered and freeze-dried before following the modified DNA extraction protocol as previously described (Norgen Biotech Comp., Thorold, Canada). The library was prepared using a SMRT bell Express Template Prep Kit (PacBio, Menlo Park, USA). The library pool was sequenced on one SMRT cell using the PacBio Sequel II platform in the SickKids sequencing facility (Toronto, ON, Canada). The reads were assembled into contigs with the Canu assembler v. 2.1.1 [35 (link)]. The quality of genome assemblies was accessed using QUAST v. 5.0.2 [36 (link)]. The completeness of assembly was estimated with BUSCO v.4.0.5 employing the dataset Ascomycota_odb10 [37 (link)]. Repeat sequences were identified with RepeatMasker v. 4.0.9 [38 ] using the library of repeats for fungi obtained from Repbase [39 (link)]. Gene prediction was executed using Augustus v. 3.4.0 [40 (link)]. Augustus was trained with the gene structures from the representative genome of C. mali 03–8 (GCA_000818155) obtained using the MAKER2 pipeline v. 2.31.11 [41 (link)].