ena-STUDY-Genoscope CEA-26-06-2017-15:25:15:101-299
De novo and updated assembly and annotation of L. maculans brassicae JN3 using Oxford Nanopore MinION sequencing
L. maculans  JN3 genome assembly was reduced to 33 scaffolds with a scaffold N50 of 2435 kb and a total length of 45.87 Mb. Its  genome annotation was supported by integrating conserved proteins and RNA sequencing from Leptosphaeria-infected cotyledons, leaf stem, stem and canker-affected lower stem from canola (Brassica napus cv. Darmor and Bristol). It resulted in 13125, predicted protein-coding genes for L. maculans  JN3. Genome completeness was estimated using BUSCO and reached 98% in respect to the eukaryotic BUSCO database.The newly produced assemblies and annotations of this genome will allow further studies, notably focused on the interaction between Leptosphaeria maculans and canola. The discovery of as yet unknown effectors will notably allow progress in B. napus breeding towards L. maculans resistance.Keywords: Leptosphaeria, genomics, assembly, annotation, long reads, Nanopore
L. maculans  JN3 genome assembly was reduced to 33 scaffolds with a scaffold N50 of 2435 kb and a total length of 45.87 Mb. Its  genome annotation was supported by integrating conserved proteins and RNA sequencing from Leptosphaeria-infected cotyledons, leaf stem, stem and canker-affected lower stem from canola (Brassica napus cv. Darmor and Bristol). It resulted in 13125, predicted protein-coding genes for L. maculans  JN3. Genome completeness was estimated using BUSCO and reached 98% in respect to the eukaryotic BUSCO database.The newly produced assemblies and annotations of this genome will allow further studies, notably focused on the interaction between Leptosphaeria maculans and canola. The discovery of as yet unknown effectors will notably allow progress in B. napus breeding towards L. maculans resistance.Keywords: Leptosphaeria, genomics, assembly, annotation, long reads, Nanopore