Status
The Phanerochaete chrysosporium RP-78 v4.0 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section. In contrast to the v3.2 genome, this annotation has been improved through the addition of Iso-Seq data to the original RNAseq transcriptome.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 33.91 |
| Sequencing read coverage depth | 190.59x |
| # of contigs | 19 |
| # of scaffolds | 19 |
| # of scaffolds >= 2Kbp | 19 |
| Scaffold N50 | 5 |
| Scaffold L50 (Mbp) | 3.04 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 3.87, 3.64, 3.63 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 166335752 | 165269057 | 99.4% |
| Other | Illumina_RNA_contigs | 57330 | 54718 | 95.4% |
| Other | PacBio_RNA_consensi | 148217 | 144438 | 97.5% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1916 | 1656 |
| transcript | 1608 | 1383 |
| exon | 266 | 163 |
| intron | 63 | 56 |
| description: | ||
| protein length (aa) | 457 | 374 |
| exons per gene | 6.05 | 5 |
| # of gene models | 12256 |
Collaborators
- Michael Freitag, Oregon State University, Oregon
- Daniel Cullen, US Forest Service, USDA, Wisconsin
- Adrian Tsang, Concordia University, Quebec, CA
Links
- JGI PhyloGroup Portals: Fungi Dikarya Basidiomycota Agaricomycotina Agaricomycetes Polyporales
- JGI EcoGroup Portals: White Rot Fungi
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.
