Luca Degradi, University of Milan, Italy
Fusarium musae is a cross-kingdom pathogen able to infect banana, but also causes clinical infections. Its genome was obtained using only nanopore long reads. The quality evaluation with BUSCO revealed a higher completeness compared with the submitted NCBI Fusarium musae genome available assembled using short reads. Our reference obtained with a hybrid approach had only 0.2% higher completeness compared to the genome assembled with Oxford Nanopore reads. The key step in long-read assembly was the use of the Medaka polishing tool, which improved the completeness of the assembly up to 99.8% with the Hypocreales BUSCO analysis. The same reads also allowed us to assemble the mtDNA. Using Flye assembler, which detects and assembles circular sequences, our results were comparable with the reference mtDNA obtained using NOVOplasty, leading to the identification of all annotated genes in MFannot. Overall, the use of nanopore sequencing with our dataset provided better completeness of the genome compared to the existing reference. Comparative analysis of the F. musae genome is ongoing in our lab.
Luca Degradi recently completed his masters degree in biotechnology for the bioeconomy and will take up a researcher position at the University of Milan. During his thesis, he sequenced a strain of Fusarium musae isolated from banana and is looking forward to continuing his research.