Status
(Mar 2016) The Vararia minispora EC-137 genome was sequenced using the Illumina platform, assembled with AllPathsLG version R42328, and annotated with the JGI annotation pipeline.
Summary statistics for the Vararia minispora EC-137 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 36.81 |
| Sequencing read coverage depth | 149.8 |
| # of contigs | 1675 |
| # of scaffolds | 1435 |
| # of scaffolds >= 2Kbp | 1137 |
| Scaffold N50 | 127 |
| Scaffold L50 (Mbp) | 0.08 |
| # of gaps | 240 |
| % of scaffold length in gaps | 0.3% |
| Three largest Scaffolds (Mbp) | 0.44, 0.39, 0.35 |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1621 | 1353 |
| transcript | 1282 | 1050 |
| exon | 220 | 141 |
| intron | 72 | 56 |
| description: | ||
| protein length (aa) | 427 | 350 |
| exons per gene | 5.82 | 5 |
| # of gene models | 10962 |
Collaborators
Joseph W. Spatafora, Oregon State University
Daniel L. Lindner, US Forest Service, Center for Forest Mycology Research
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Looney B, Miyauchi S, Morin E, Drula E, Courty PE, Kohler A, Kuo A, LaButti K, Pangilinan J, Lipzen A, Riley R, Andreopoulos W, He G, Johnson J, Nolan M, Tritt A, Barry KW, Grigoriev IV, Nagy LG, Hibbett D, Henrissat B, Matheny PB, Labbé J, Martin FM
Evolutionary transition to the ectomycorrhizal habit in the genomes of a hyperdiverse lineage of mushroom-forming fungi.
New Phytol. 2022 Mar;233(5):2294-2309. doi: 10.1111/nph.17892
Looney B, Miyauchi S, Morin E, Drula E, Courty PE, Kohler A, Kuo A, LaButti K, Pangilinan J, Lipzen A, Riley R, Andreopoulos W, He G, Johnson J, Nolan M, Tritt A, Barry KW, Grigoriev IV, Nagy LG, Hibbett D, Henrissat B, Matheny PB, Labbé J, Martin FM
Evolutionary transition to the ectomycorrhizal habit in the genomes of a hyperdiverse lineage of mushroom-forming fungi.
New Phytol. 2022 Mar;233(5):2294-2309. doi: 10.1111/nph.17892
Links
Spatafora lab, Dept. of Botany and Plant Pathology, Oregon State University
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.
