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
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.
