Draft Genome Sequence of the biocontrol agent Pythium oligandrum Strain Po37, an Oomycota
The strain was cultivated on PDA agar, tip purified, and DNA was isolated using DNeasy Plant Mini Kit (QIAGEN) for phylogenetic testing by ITS-LSU/rDNA sequencing (internal transcribed spacer and large subunit). Sequencing was performed by GATC Biotech AG (Germany, Konstanz) using an IlluminaMiSeq Personal Sequencer in paired-end 250bp mode (MiSeq Reagent Kits v2). 14.51M reads were received representing in total 7255.1M bases. Read quality check was performed using FastQC(4). Raw sequence reads were quality filtered using Trimmomatic(5) to finally obtain 2x 14.2M paired reads that were used for assembly. The Bruijn graph based assembler SPAdes(6) was used for the scaffold assembly after estimating the optimal k-mer lengths with KmerGenie(7). 725 scaffolds longer then 2kb were obtained with mean coverage of 130 and a total length of 35.9 Mb. The quality of the genome assembly was assessed in QUAST (8) N50: 119987; N75: 69828; L50: 92; L75: 188. Sequencing completeness was estimated using BUSCO (9)  based on a set of 1438 common fungal genes aka Benchmarking Universal Single-Copy Orthologs (BUSCOs)