Status
(Dec 2015) The Pluteus cervinus NL-1719 genome was sequenced using Illumina and assembled with Velvet and AllPathsLG.
Summary statistics for the Pluteus cervinus NL-1719 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 52.19 |
| Sequencing read coverage depth | 138.2x |
| # of contigs | 3329 |
| # of scaffolds | 1887 |
| # of scaffolds >= 2Kbp | 1392 |
| Scaffold N50 | 119 |
| Scaffold L50 (Mbp) | 0.10 |
| # of gaps | 1442 |
| % of scaffold length in gaps | 4.5% |
| Three largest Scaffolds (Mbp) | 2.18, 0.96, 0.94 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 54086 | 50788 | 93.9% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1658 | 1408 |
| transcript | 1370 | 1149 |
| exon | 258 | 152 |
| intron | 69 | 56 |
| description: | ||
| protein length (aa) | 402 | 325 |
| exons per gene | 5.32 | 4 |
| # of gene models | 19818 |
Collaborators
Joseph W. Spatafora, Oregon State University
László Nagy, Hungarian Academy of Sciences
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Varga T, Krizsán K, Földi C, Dima B, Sánchez-García M, Sánchez-Ramírez S, Szöllősi GJ, Szarkándi JG, Papp V, Albert L, Andreopoulos W, Angelini C, Antonín V, Barry KW, Bougher NL, Buchanan P, Buyck B, Bense V, Catcheside P, Chovatia M, Cooper J, Dämon W, Desjardin D, Finy P, Geml J, Haridas S, Hughes K, Justo A, Karasiński D, Kautmanova I, Kiss B, Kocsubé S, Kotiranta H, LaButti KM, Lechner BE, Liimatainen K, Lipzen A, Lukács Z, Mihaltcheva S, Morgado LN, Niskanen T, Noordeloos ME, Ohm RA, Ortiz-Santana B, Ovrebo C, Rácz N, Riley R, Savchenko A, Shiryaev A, Soop K, Spirin V, Szebenyi C, Tomšovský M, Tulloss RE, Uehling J, Grigoriev IV, Vágvölgyi C, Papp T, Martin FM, Miettinen O, Hibbett DS, Nagy LG
Megaphylogeny resolves global patterns of mushroom evolution.
Nat Ecol Evol. 2019 Apr;3(4):668-678. doi: 10.1038/s41559-019-0834-1
Varga T, Krizsán K, Földi C, Dima B, Sánchez-García M, Sánchez-Ramírez S, Szöllősi GJ, Szarkándi JG, Papp V, Albert L, Andreopoulos W, Angelini C, Antonín V, Barry KW, Bougher NL, Buchanan P, Buyck B, Bense V, Catcheside P, Chovatia M, Cooper J, Dämon W, Desjardin D, Finy P, Geml J, Haridas S, Hughes K, Justo A, Karasiński D, Kautmanova I, Kiss B, Kocsubé S, Kotiranta H, LaButti KM, Lechner BE, Liimatainen K, Lipzen A, Lukács Z, Mihaltcheva S, Morgado LN, Niskanen T, Noordeloos ME, Ohm RA, Ortiz-Santana B, Ovrebo C, Rácz N, Riley R, Savchenko A, Shiryaev A, Soop K, Spirin V, Szebenyi C, Tomšovský M, Tulloss RE, Uehling J, Grigoriev IV, Vágvölgyi C, Papp T, Martin FM, Miettinen O, Hibbett DS, Nagy LG
Megaphylogeny resolves global patterns of mushroom evolution.
Nat Ecol Evol. 2019 Apr;3(4):668-678. doi: 10.1038/s41559-019-0834-1
Links
Spatafora lab, Dept. of Botany and Plant Pathology, Oregon State University
László Nagy laboratory at Biological Research Centre of the Hungarian Academy of Sciences
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.
