Status
[October 2024] The Epicoccum nigrum MEM15 (OSU Angiosperm leaf) v1.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline. Originally processed as a metagenome, no contaminants were identified so the mitochondrial genome could be directly associated with the nuclear assembly and is available in the downloads section.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 36.05 |
| Sequencing read coverage depth | 491.9x |
| # of contigs | 22 |
| # of scaffolds | 22 |
| # of scaffolds >= 2Kbp | 22 |
| Scaffold N50 | 8 |
| Scaffold L50 (Mbp) | 1.60 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 4.85, 3.07, 2.00 |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1733 | 1380 |
| transcript | 1547 | 1260 |
| exon | 550 | 315 |
| intron | 105 | 55 |
| description: | ||
| protein length (aa) | 516 | 420 |
| exons per gene | 2.81 | 2 |
| # of gene models | 11923 |
Collaborators
- Amy Honan, Oregon State University, Corvallis, OR
- Michelle Mathieu, Oregon State University, Corvallis, OR
Links
- JGI Myco-Ed homepage
- JGI Myco-Ed Genome Group Portal
- JGI Ecogroup Portal: Endophytic_fungi
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Dothideomycetes Pleosporales
Funding
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.
