Status
This draft release was produced using Sanger reads, shredded consensus from Velvet-assembled Illumina data, and Roche (454) paired end. Gap closure with gapResolution closed 181 gaps (25%) in initial assembly. Newbler was the assembler. The nuclear genome sequence from this finished assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses.
Summary statistics for the Ganoderma sp. 10597 SS1 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 39.52 |
| Sequencing read coverage depth | 33.74 |
| # of contigs | 503 |
| # of scaffolds | 156 |
| # of scaffolds >= 2Kbp | 156 |
| Scaffold N50 | 6 |
| Scaffold L50 (Mbp) | 2.73 |
| # of gaps | 347 |
| % of scaffold length in gaps | 2.5% |
| Three largest Scaffolds (Mbp) | 4.61, 3.72, 3.22 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | EstClusters | 15411 | 15062 | 97.7% |
| Ests | ESTs1 | 1480525 | 1455711 | 98.3% |
| Ests | ESTs2 | 1409716 | 1391065 | 98.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1794 | 1541 |
| transcript | 1407 | 1182 |
| exon | 242 | 148 |
| intron | 82 | 62 |
| description: | ||
| protein length (aa) | 427 | 355 |
| exons per gene | 5.82 | 5 |
| # of gene models | 12910 |
Collaborators
- PI: David Hibbett, Clark University
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Binder M, Justo A, Riley R, Salamov A, Lopez-Giraldez F, Sjökvist E, Copeland A, Foster B, Sun H, Larsson E, Larsson KH, Townsend J, Grigoriev IV, Hibbett DS
Phylogenetic and phylogenomic overview of the Polyporales.
Mycologia. 2013 Nov-Dec;105(6):1350-73. doi: 10.3852/13-003
Binder M, Justo A, Riley R, Salamov A, Lopez-Giraldez F, Sjökvist E, Copeland A, Foster B, Sun H, Larsson E, Larsson KH, Townsend J, Grigoriev IV, Hibbett DS
Phylogenetic and phylogenomic overview of the Polyporales.
Mycologia. 2013 Nov-Dec;105(6):1350-73. doi: 10.3852/13-003
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.
