Status
Assembly v1 (November 2013) is a Velvet draft assembly of Illumina gDNA reads. The sequencing and assembly were not done by JGI but by AFTOL and Oregon State University. For details, see Joey's Glonium genome site.
Summary statistics for the Glonium stellatum CBS 207.34
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 40.52 |
| Sequencing read coverage depth | unknown |
| # of contigs | 4160 |
| # of scaffolds | 2730 |
| # of scaffolds >= 2Kbp | 2239 |
| Scaffold N50 | 395 |
| Scaffold L50 (Mbp) | 0.03 |
| # of gaps | 1430 |
| % of scaffold length in gaps | 0.5% |
| Three largest Scaffolds (Mbp) | 0.15, 0.14, 0.13 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | INRA_RNA_contigs | 21267 | 20044 | 94.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1635 | 1389 |
| transcript | 1448 | 1209 |
| exon | 461 | 287 |
| intron | 89 | 61 |
| description: | ||
| protein length (aa) | 426 | 343 |
| exons per gene | 3.14 | 3 |
| # of gene models | 14362 |
Collaborators
- DOE Joint Genome Institute
- Joseph Spatafora at AFTOL and Oregon State U
- Alisha Quandt at Oregon State U
- Francis Martin at MycorWeb
- Annegret Kohler at MycorWeb
- Martina Peter at Swiss Federal Institute for Forest, Snow and Landscape Research WSL
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Peter M, Kohler A, Ohm RA, Kuo A, Krützmann J, Morin E, Arend M, Barry KW, Binder M, Choi C, Clum A, Copeland A, Grisel N, Haridas S, Kipfer T, LaButti K, Lindquist E, Lipzen A, Maire R, Meier B, Mihaltcheva S, Molinier V, Murat C, Pöggeler S, Quandt CA, Sperisen C, Tritt A, Tisserant E, Crous PW, Henrissat B, Nehls U, Egli S, Spatafora JW, Grigoriev IV, Martin FM
Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum.
Nat Commun. 2016 Sep 7;7():12662. doi: 10.1038/ncomms12662
Peter M, Kohler A, Ohm RA, Kuo A, Krützmann J, Morin E, Arend M, Barry KW, Binder M, Choi C, Clum A, Copeland A, Grisel N, Haridas S, Kipfer T, LaButti K, Lindquist E, Lipzen A, Maire R, Meier B, Mihaltcheva S, Molinier V, Murat C, Pöggeler S, Quandt CA, Sperisen C, Tritt A, Tisserant E, Crous PW, Henrissat B, Nehls U, Egli S, Spatafora JW, Grigoriev IV, Martin FM
Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum.
Nat Commun. 2016 Sep 7;7():12662. doi: 10.1038/ncomms12662
Funding
This project was not sequenced at the JGI.
