Microdochium nivale F00608 genome sequencing (long Nanopore reads)
DNA was extracted from M. nivale mycelium using the phenol-chloroform method. DNA samples were treated with 100 g/mL RNase A (Qiagen, Germany) and 50 g/mL proteinase K (Qiagen, Germany) (Maghini et al., 2021). Polysaccharide impurities were removed from the DNA samples with cetyltrimethylammonium bromide (Ges-Neto, Loguercio-Leite, Guerrero, 2005). The quantity and quality of the DNA samples were assessed using an Implen nanophotometer (Implen, Germany) and 1% agarose gel-electrophoresis, respectively. For Illumina sequencing, the DNA was fragmented using an M220 focused-ultrasonicator (Covaris, USA) . DNA libraries were prepared using the NEBNext Ultra II kit. The efficiency of DNA fragmentation and the quality of DNA libraries were estimated using an Agilent 2100 Bioanalyzer and a High Sensitivity DNA kit. For Oxford Nanopore sequencing, DNA molecules shorter than 10,000 bp were eliminated using the Short Read Eliminator Kit. DNA libraries were prepared using the Ligation 1D ONT SQK-LSK109 sequencing kit (Oxford Nanopore, UK). The libraries were sequenced by MinION Mk1 (Oxford Nanopore, UK).