Status
v1.0 (October, 2010): The assembly release version 1.0 of Fomitopsis pinicola was generated using the Newbler and Velvet assembler and Roche 454, Illumina Solexa and Fosmid Sanger input data.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 46.30 |
| Sequencing read coverage depth | 58.37 |
| # of contigs | 2785 |
| # of scaffolds | 1117 |
| # of scaffolds >= 2Kbp | 1117 |
| Scaffold N50 | 25 |
| Scaffold L50 (Mbp) | 0.51 |
| # of gaps | 834 |
| % of scaffold length in gaps | 9.2% |
| Three largest Scaffolds (Mbp) | 2.58, 1.88, 1.68 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | ESTs | 776365 | 739060 | 95.2% |
| Other | Clusters | 11512 | 10723 | 93.1% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1689 | 1373 |
| transcript | 1306 | 1074 |
| exon | 238 | 149 |
| intron | 87 | 57 |
| description: | ||
| protein length (aa) | 396 | 323 |
| exons per gene | 5.50 | 4 |
| # of gene models | 14724 |
Collaborators
- Igor Grigoriev, Joint Genome Institute, Walnut Creek, CA
- David Hibbett, Clark University, Worcester, MA
Links
Publication:
Floudas D, Binder M, Riley R, Barry K, Blanchette RA, Henrissat B, Martínez AT, Ortillar 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, Khajamohiddin A, Kohler A, Kues U, Kumar TKA, Kuo A, LaButti K, Larrondo LF, Lindquist E, Ling A, Lucas S, Lundell T, Martin R, McLaughlin DJ, Morgenstern I, Morin E, Murat C, Nolan M, Ohm RA, Patyshakuliyeva A, Rokas A, Ruiz-Dueñas FJ, Sabat G, Salamov A, Samejima M, Schmutz J, Slot JC, John FS, Stenlid J, Sun H, Sun S, Tsang A, Wiebenga A, Young D, Pisabarro A, Eastwood DC, Martin F, Cullen D, Grigoriev IV, Hibbett DS (2012) The Paleozoic origin of enzymatic lignin decomposition reconstructed from 31 fungal genomes. Science. 336(6089):1715-1719.
