Status
February 2013. The genome of Polyporus arcularius was sequenced using Illumina technology and assembled using AllPathsLG release version R42874 (Gnerre et al., 2011).
Summary statistics for the Polyporus arcularius v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 43.45 |
| Sequencing read coverage depth | 118x |
| # of contigs | 2601 |
| # of scaffolds | 2540 |
| # of scaffolds >= 2Kbp | 1934 |
| Scaffold N50 | 244 |
| Scaffold L50 (Mbp) | 0.05 |
| # of gaps | 61 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 0.31, 0.25, 0.24 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | Illumina ESTs assembled using RNNotator | 43899 | 40496 | 92.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1652 | 1388 |
| transcript | 1337 | 1121 |
| exon | 254 | 156 |
| intron | 76 | 59 |
| description: | ||
| protein length (aa) | 394 | 327 |
| exons per gene | 5.27 | 4 |
| # of gene models | 17525 |
Collaborators
- Francis Martin, INRA Nancy, France
- Laszlo Nagy, Clark University
- David Hibbett, Clark University
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-GarcÃa M, Sánchez-RamÃrez S, SzöllÅ‘si GJ, Szarkándi JG, Papp V, Albert L, Andreopoulos W, Angelini C, AntonÃn 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, KarasiÅ„ski 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, TomÅ¡ovský 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-GarcÃa M, Sánchez-RamÃrez S, SzöllÅ‘si GJ, Szarkándi JG, Papp V, Albert L, Andreopoulos W, Angelini C, AntonÃn 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, KarasiÅ„ski 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, TomÅ¡ovský 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
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.
