Status
Assembly v1 (June 2015) is a standard draft assembly of Illumina gDNA reads. A total of 271 scaffolds and 45.0 Mbp were assembled with AllPathsLG.
Annotation v1 (April 2016) is a standard draft annotation using RNA-Seq, contigs assembled thereof by Trinity, and the JGI Annotation Pipeline.
Summary statistics for the Gyromitra esculenta CBS101906
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 45.05 |
| Sequencing read coverage depth | 83.6x |
| # of contigs | 774 |
| # of scaffolds | 271 |
| # of scaffolds >= 2Kbp | 243 |
| Scaffold N50 | 27 |
| Scaffold L50 (Mbp) | 0.54 |
| # of gaps | 503 |
| % of scaffold length in gaps | 1.5% |
| Three largest Scaffolds (Mbp) | 1.69, 1.41, 1.34 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 54003 | 52558 | 97.3% |
| Ests | est.fasta | 133369492 | 117558673 | 88.1% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1698 | 1428 |
| transcript | 1488 | 1227 |
| exon | 420 | 262 |
| intron | 84 | 67 |
| description: | ||
| protein length (aa) | 425 | 331 |
| exons per gene | 3.54 | 3 |
| # of gene models | 11202 |
Collaborators
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Dirks AC, Methven AS, Miller AN, Orozco-Quime M, Maurice S, Bonito G, Van Wyk J, Ahrendt S, Kuo A, Andreopoulos W, Riley R, Lipzen A, Chovatia M, Savage E, Barry K, Grigoriev IV, Bradshaw AJ, Martin FM, Elizabeth Arnold A, James TY
Phylogenomic insights into the taxonomy, ecology, and mating systems of the lorchel family Discinaceae (Pezizales, Ascomycota).
Mol Phylogenet Evol. 2025 Jan 7;():108286. doi: 10.1016/j.ympev.2025.108286
Dirks AC, Methven AS, Miller AN, Orozco-Quime M, Maurice S, Bonito G, Van Wyk J, Ahrendt S, Kuo A, Andreopoulos W, Riley R, Lipzen A, Chovatia M, Savage E, Barry K, Grigoriev IV, Bradshaw AJ, Martin FM, Elizabeth Arnold A, James TY
Phylogenomic insights into the taxonomy, ecology, and mating systems of the lorchel family Discinaceae (Pezizales, Ascomycota).
Mol Phylogenet Evol. 2025 Jan 7;():108286. doi: 10.1016/j.ympev.2025.108286
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.
