Status
Status
Version1 (June 2009).The draft annotation release version 1.0 of the v1.0 assembly was produced by the JGI Annotation Pipeline, using a variety of cDNA/EST-based, homology-based, and ab initio gene predictors. After filtering for EST and homology support, a total of 8313 genes were structurally and functionally annotated. 77% of the genes have homology support, 52% have Pfam support, and 31% have EST support.
Draft assembly release version 1.0 of whole-genome shotgun reads was constructed at JGI with Arachne, using paired end sequencing reads at an average coverage of 7.44X.
Genomic assembly stats:
| Main genome scaffold total | 45 |
| Main genome contig total | 484 |
| Main genome scaffold sequence total | 28.6 MB |
| Main genome contig sequence total | 28.0 MB (<2.3% gaps) |
| Main genome scaffold N/L50 | 5/1.6 MB |
| Main genome contig N/L50 | 60/123.8 KB |
| Number of scaffolds > 50 KB | 26 |
| % main genome in scaffolds > 50 KB | 99.4% |
| Assembled Coverage Stats | 7.44 |
20586 ESTs were derived by JGI from a jelly fungus culture.
From these ESTs JGI derived 3348 clusters and from them 5720 EST cluster consensi.
Collaborators
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
Links
- Cryptococcus neoformans Database at Broad
- Cryptococcus neoformans Serotype B Database at Broad
- Cryptococcus neoformans Genome Project at SGTC and TIGR
Funding
This work was performed under the auspices of the US Department of
Energy's Office of Science, Biological and Environmental Research
Program, and by the University of California, Lawrence Berkeley
National Laboratory under contract No. DE-AC02-05CH11231, Lawrence
Livermore National Laboratory under Contract No. DE-AC52-07NA27344,
and Los Alamos National Laboratory under contract No.
DE-AC02-06NA25396.
