Info • Nidula sp. CBS 380.80 v1.0


[January 2023] The Nidula sp. CBS 380.80 v1.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

The genome is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. Many of the scaffolds are very similar to larger scaffolds and are predicted to constitute an alternate or secondary haplotype. To represent these primary and secondary haplotypes in the Portal, we have created 'primary alleles' and 'secondary alleles' gene model tracks, comprising the models found on each haplotype. The goal of the GeneCatalog (GC) is to produce a non-redundant set of models which captures the full functional repertoire of the genome, and so the few secondary alleles that are unique were included in the GC, while all others were not.

Genome Assembly
Genome Assembly size (Mbp) 127.76
Sequencing read coverage depth 53.65x
# of contigs 333
# of scaffolds 333
# of scaffolds >= 2Kbp 332
Scaffold N50 43
Scaffold L50 (Mbp) 0.89
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.18, 3.01, 2.40

Gene Models FilteredModels1
length (bp) of: average median
gene 1836 1474
transcript 1361 1065
exon 204 129
intron 86 59
protein length (aa) 454 355
exons per gene 6.66 5
# of gene models 17885



The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.