PacBio genome sequencing and assembly of A. niger CBS 554.65

In this study, the genome of the neotype A. niger strain CBS 554.65 was sequenced with PacBio and annotated with Augustus. The genome sequencing yielded 5.3 Gbp in 287,000 subreads. The mean length was 18.4 Kbp for the longest subreads and half of the data was in reads longer than 29 Kbp. The assembly consisted of 17 contigs with a total of 40 Gbp and 55.2-fold coverage. Half of the size of the genome is comprised in 4 scaffolds (L50) of which the smallest has a length of 4.07 Mbp (N50). The GC content is 50.3%. This high-quality sequence covered all the 8 centromeric regions of the chromosomes. The genome was annotated with Augustus, first by training the tool on the genome annotation of the strain ATCC 1015 as reference and then by submitting the genome sequence of CBS 554.65. Based on this automated annotation 12,240 protein coding genes were predicted.