Status
[June 2021] The Polyphilus sieberi DSE2052 v1.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline. The transcriptome was sequenced with Illumina and assembled with Trinity. A large amount of rRNA contamination resulted in poor RNA mapping to the genome. The mitochondrial genome was assembled separately and is available in the Download tab.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 69.89 |
| Sequencing read coverage depth | 72.7X |
| # of contigs | 63 |
| # of scaffolds | 63 |
| # of scaffolds >= 2Kbp | 63 |
| Scaffold N50 | 10 |
| Scaffold L50 (Mbp) | 2.67 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 7.72, 5.53, 3.28 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 66543 | 63081 | 94.8% |
| Ests | est.fasta | 177188101 | 120121549 | 67.8% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1772 | 1543 |
| transcript | 1605 | 1381 |
| exon | 521 | 324 |
| intron | 82 | 57 |
| description: | ||
| protein length (aa) | 459 | 377 |
| exons per gene | 3.08 | 3 |
| # of gene models | 19299 |
Collaborators
Links
- 1000 Fungal Genomes Project
- JGI EcoGroup Portal: Endophytic fungi
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Leotiomycetes Helotiales
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.
