Status
v2.0 (December 2010):The Sporotrichum thermophile finished genome sequence assembly v2.0 was built with the was built with Arachne assembler from whole genome shotgun and paired end sequencing reads, followed by assembly finishing. The nuclear genome sequence from this finished assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses.
Summary statistics for the Sporotrichum thermophile v2.0
release are below.
Genome Assembly | |
Genome Assembly size (Mbp} | 38.74 |
Sequencing read coverage depth | Finished |
# of contigs | 7 |
# of scaffolds | 7 |
# of scaffolds >= 2Kbp | 7 |
Scaffold N50 | 3 |
Scaffold L50 (Mbp) | 5.06 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 10.93, 5.45, 5.06 |
ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
EstClusters | EstClusters | 10567 | 9165 | 86.7% |
Ests | Ests | 44939 | 42724 | 95.1% |
Gene Models | FilteredModels2 | |
length (bp) of: | average | median |
gene | 1985 | 1733 |
transcript | 1754 | 1524 |
exon | 620 | 362 |
intron | 128 | 80 |
description: | ||
protein length (aa) | 475 | 388 |
exons per gene | 2.83 | 2 |
# of gene models | 9110 |
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
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Berka RM, Grigoriev IV, Otillar R, Salamov A, Grimwood J, Reid I, Ishmael N, John T, Darmond C, Moisan MC, Henrissat B, Coutinho PM, Lombard V, Natvig DO, Lindquist E, Schmutz J, Lucas S, Harris P, Powlowski J, Bellemare A, Taylor D, Butler G, de Vries RP, Allijn IE, van den Brink J, Ushinsky S, Storms R, Powell AJ, Paulsen IT, Elbourne LD, Baker SE, Magnuson J, Laboissiere S, Clutterbuck AJ, Martinez D, Wogulis M, de Leon AL, Rey MW, Tsang A
Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris.
Nat Biotechnol. 2011 Oct 2;29(10):922-7. doi: 10.1038/nbt.1976
Berka RM, Grigoriev IV, Otillar R, Salamov A, Grimwood J, Reid I, Ishmael N, John T, Darmond C, Moisan MC, Henrissat B, Coutinho PM, Lombard V, Natvig DO, Lindquist E, Schmutz J, Lucas S, Harris P, Powlowski J, Bellemare A, Taylor D, Butler G, de Vries RP, Allijn IE, van den Brink J, Ushinsky S, Storms R, Powell AJ, Paulsen IT, Elbourne LD, Baker SE, Magnuson J, Laboissiere S, Clutterbuck AJ, Martinez D, Wogulis M, de Leon AL, Rey MW, Tsang A
Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and Thielavia terrestris.
Nat Biotechnol. 2011 Oct 2;29(10):922-7. doi: 10.1038/nbt.1976
Links
Thielavia terrestris genome portal
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.