Status
v3.0 (July 2012): The assembly release version 3.0 of Fomitopsis schrenkii was generated using the Newbler and Velvet assembler and Roche 454, Illumina Solexa, Fosmid Sanger and PacBio input data.
Summary statistics for the Fomitopsis schrenkii FP-58527
SS1 v3.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 41.61 |
| Sequencing read coverage depth | 85.9x |
| # of contigs | 988 |
| # of scaffolds | 504 |
| # of scaffolds >= 2Kbp | 382 |
| Scaffold N50 | 37 |
| Scaffold L50 (Mbp) | 0.37 |
| # of gaps | 484 |
| % of scaffold length in gaps | 4.8% |
| Three largest Scaffolds (Mbp) | 1.38, 1.15, 1.00 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | ESTs | 776365 | 742135 | 95.6% |
| Other | Clusters | 11512 | 10815 | 93.9% |
| Gene Models | FilteredModels2 | |
| length (bp) of: | average | median |
| gene | 1652 | 1351 |
| transcript | 1281 | 1055 |
| exon | 230 | 144 |
| intron | 83 | 57 |
| description: | ||
| protein length (aa) | 405 | 332 |
| exons per gene | 5.56 | 4 |
| # of gene models | 13885 |
Collaborators
- David Hibbett, Clark University, Worcester, MA
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Floudas D, Binder M, Riley R, Barry K, Blanchette RA, Henrissat B, Martínez AT, Otillar R, Spatafora JW, Yadav JS, Aerts A, Benoit I, Boyd A, Carlson A, Copeland A, Coutinho PM, de Vries RP, Ferreira P, Findley K, Foster B, Gaskell J, Glotzer D, Górecki P, Heitman J, Hesse C, Hori C, Igarashi K, Jurgens JA, Kallen N, Kersten P, Kohler A, Kües U, Kumar TK, Kuo A, LaButti K, Larrondo LF, Lindquist E, Ling A, Lombard V, Lucas S, Lundell T, Martin R, McLaughlin DJ, Morgenstern I, Morin E, Murat C, Nagy LG, Nolan M, Ohm RA, Patyshakuliyeva A, Rokas A, Ruiz-Dueñas FJ, Sabat G, Salamov A, Samejima M, Schmutz J, Slot JC, St John F, Stenlid J, Sun H, Sun S, Syed K, Tsang A, Wiebenga A, Young D, Pisabarro A, Eastwood DC, Martin F, Cullen D, Grigoriev IV, Hibbett DS
The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes.
Science. 2012 Jun 29;336(6089):1715-9. doi: 10.1126/science.1221748
Floudas D, Binder M, Riley R, Barry K, Blanchette RA, Henrissat B, Martínez AT, Otillar R, Spatafora JW, Yadav JS, Aerts A, Benoit I, Boyd A, Carlson A, Copeland A, Coutinho PM, de Vries RP, Ferreira P, Findley K, Foster B, Gaskell J, Glotzer D, Górecki P, Heitman J, Hesse C, Hori C, Igarashi K, Jurgens JA, Kallen N, Kersten P, Kohler A, Kües U, Kumar TK, Kuo A, LaButti K, Larrondo LF, Lindquist E, Ling A, Lombard V, Lucas S, Lundell T, Martin R, McLaughlin DJ, Morgenstern I, Morin E, Murat C, Nagy LG, Nolan M, Ohm RA, Patyshakuliyeva A, Rokas A, Ruiz-Dueñas FJ, Sabat G, Salamov A, Samejima M, Schmutz J, Slot JC, St John F, Stenlid J, Sun H, Sun S, Syed K, Tsang A, Wiebenga A, Young D, Pisabarro A, Eastwood DC, Martin F, Cullen D, Grigoriev IV, Hibbett DS
The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes.
Science. 2012 Jun 29;336(6089):1715-9. doi: 10.1126/science.1221748
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.
