Status
(Apr 2016) The Sclerogaster hysterangioides SCL2.BST genome was sequenced using Illumina and PacBio technologies, assembled with Falcon, improved with finisherSC, and polished with Quiver.
The JGI annotation pipeline identified 3,463 gene models as possible diploid alleles, and excluded them from the filtered model/gene catalog set. These models are shown in the track "secondary_alleles", and are available from the download page.
Summary statistics for the Sclerogaster hysterangioides
SCL2.BST v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 124.26 |
| Sequencing read coverage depth | |
| # of contigs | 901 |
| # of scaffolds | 901 |
| # of scaffolds >= 2Kbp | 887 |
| Scaffold N50 | 55 |
| Scaffold L50 (Mbp) | 0.52 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 3.48, 2.66, 2.47 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 45946 | 44509 | 96.9% |
| Ests | est.fasta | 175137992 | 174595067 | 99.7% |
| Gene Models | FilteredModels2 | |
| length (bp) of: | average | median |
| gene | 1544 | 1300 |
| transcript | 1235 | 1033 |
| exon | 205 | 131 |
| intron | 63 | 55 |
| description: | ||
| protein length (aa) | 355 | 283 |
| exons per gene | 6.03 | 5 |
| # of gene models | 16656 |
Collaborators
- Pedro Crous, CBS-KNAW Fungal Biodiversity Centre
- Joseph W. Spatafora, Dept. of Botany and Plant Pathology, Oregon State University
Links
- 1000 Fungal Genomes Project
- JGI PhyloGroup Portals: Fungi Dikarya Basidiomycota Agaricomycotina Agaricomycetes Geastrales
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.
