Status
[May 2018] The Coprinellus angulatus genome was sequenced using PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Coprinellus angulatus is likely a polymorphic dikaryon, and this is reflected in an assembly and annotation with significant separation of alleles. 327 of the 517 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) | 93.57 |
Sequencing read coverage depth | 63.55x |
# of contigs | 517 |
# of scaffolds | 517 |
# of scaffolds >= 2Kbp | 509 |
Scaffold N50 | 56 |
Scaffold L50 (Mbp) | 0.48 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 2.23, 1.88, 1.80 |
ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
EstClusters | ESTclusters | 63087 | 59183 | 93.8% |
Ests | est.fasta | 114140244 | 113252675 | 99.2% |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1769 | 1518 |
transcript | 1432 | 1212 |
exon | 264 | 158 |
intron | 78 | 59 |
description: | ||
protein length (aa) | 425 | 347 |
exons per gene | 5.43 | 4 |
# of gene models | 25937 |
Collaborators
- Tom Bruns at University of California Berkeley
Genome Reference(s)
Steindorff AS, Carver A, Calhoun S, Stillman K, Liu H, Lipzen A, He G, Yan M, Pangilinan J, LaButti K, Ng V, Bruns TD, Grigoriev IV
Comparative genomics of pyrophilous fungi reveals a link between fire events and developmental genes.
Environ Microbiol. 2021 Jan;23(1):99-109. doi: 10.1111/1462-2920.15273