Please note that this organism is for archival use only. Please see the current Status
v1.0 (June 2009):The Sporotrichum thermophile genome sequence assembly v1.0 was built with Arachne assembler from whole genome shotgun and paired end sequencing reads. The nuclear genome sequence from this draft assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses.
Summary statistics for the Sporotrichum thermophile v1.0 release:
| Nuclear Genome Assembly | v1.0 |
| Nuclear genome size(Mbp) | 38.7 |
| Sequencing read coverage depth | 7.66x |
| Reported # of contigs | 293 |
| # of nuclear scaffolds | 10 |
| # of nuclear scaffolds >2 | 10 |
| Nuclear scaffold N/L50 | 3/5.4 Mbp |
| Three largest Scaffolds (Mbp) |
7.0 7.0 5.4 |
| Gene Models | v1.01 |
| length (bp) of: | average |
| gene | 1879.4 |
| transcript | 1630.1 |
| exon | 539.89 |
| intron | 125.46 |
| description: | |
| protein length | 478.45 |
| exons per gene | 3.02 |
| # of gene models | 8806 |
1 FilteredModels1 gene model set
| ESTs | Data set | # sequences total | # mapped to genome | # not mapped to genome | % mapped to genome |
| EST clusters | Spoth1_EstCluster | 10,567 | 9,065 | 14% | 86% |
| ESTs | Spoth1_ESTs | 44,939 | 42,524 | 5% | 95% |
Collaborators:
- Adrian Tsang, Concordia University, Montreal, Canada
- Scott Baker, Pacific Northwest National Laboratory, Richland, Washington
- Richard Burlingame, Dyadic International, Inc., Jupiter, Florida
- Paul Christakopoulos, National Technical University of Athens, Greece
- Jon Magnuson, Pacific Northwest National Laboratory, Richland, Washington
- Reginald Storms, Concordia University, Montreal, Canada
- Yinbo Qu, Shandong University, Shandong, China
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.
