Status
[March 2013] The Lepidopterella palustris genome was sequenced using the Illumina platform and assembled with AllPathsLG release version R42328 (Gnerre et al., 2010).
Summary statistics for the Lepidopterella palustris CBS
459.81 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 45.67 |
| Sequencing read coverage depth | 133.8x |
| # of contigs | 3529 |
| # of scaffolds | 3371 |
| # of scaffolds >= 2Kbp | 2027 |
| Scaffold N50 | 242 |
| Scaffold L50 (Mbp) | 0.05 |
| # of gaps | 158 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 0.32, 0.25, 0.24 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator assembled Illumina ESTs | 27515 | 26506 | 96.3% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1644 | 1399 |
| transcript | 1465 | 1221 |
| exon | 486 | 295 |
| intron | 91 | 61 |
| description: | ||
| protein length (aa) | 423 | 337 |
| exons per gene | 3.02 | 2 |
| # of gene models | 13870 |
Collaborators
Joseph Spatafora, Oregon State University, USA
Pedro Crous and Manfred Binder at CBS-KNAW, The Netherlands.
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
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.
