Status
[June 2017] Assembly v3 (April 2017) is a improved draft assembly of PacBio gDNA reads using Falcon and finisherSC.
Summary statistics for the Suillus luteus UH-Slu-Lm8-n1
v3.0 release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 44.49 |
Sequencing read coverage depth | 80.09x |
# of contigs | 67 |
# of scaffolds | 67 |
# of scaffolds >= 2Kbp | 67 |
Scaffold N50 | 10 |
Scaffold L50 (Mbp) | 1.39 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 3.59, 2.96, 2.89 |
ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
Ests | est.fasta | 209233321 | 204069871 | 97.5% |
Other | JGI_RNA_contigs | 43774 | 41382 | 94.5% |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1602 | 1322 |
transcript | 1310 | 1057 |
exon | 235 | 150 |
intron | 66 | 55 |
description: | ||
protein length (aa) | 384 | 300 |
exons per gene | 5.57 | 4 |
# of gene models | 16588 |
Collaborators
- Francis Martin at MycorWeb
- Jan Colpaert at Universiteit Hasselt
- Joske Ruytinx at U Hasselt.
- Michiel Op De Beeck at U Hasselt.
- Annegret Kohler at MycorWeb.
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Kohler A, Kuo A, Nagy LG, Morin E, Barry KW, Buscot F, Canbäck B, Choi C, Cichocki N, Clum A, Colpaert J, Copeland A, Costa MD, Doré J, Floudas D, Gay G, Girlanda M, Henrissat B, Herrmann S, Hess J, Högberg N, Johansson T, Khouja HR, LaButti K, Lahrmann U, Levasseur A, Lindquist EA, Lipzen A, Marmeisse R, Martino E, Murat C, Ngan CY, Nehls U, Plett JM, Pringle A, Ohm RA, Perotto S, Peter M, Riley R, Rineau F, Ruytinx J, Salamov A, Shah F, Sun H, Tarkka M, Tritt A, Veneault-Fourrey C, Zuccaro A, Tunlid A, Grigoriev IV, Hibbett DS, Martin F
Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists.
Nat Genet. 2015 Apr;47(4):410-5. doi: 10.1038/ng.3223
Kohler A, Kuo A, Nagy LG, Morin E, Barry KW, Buscot F, Canbäck B, Choi C, Cichocki N, Clum A, Colpaert J, Copeland A, Costa MD, Doré J, Floudas D, Gay G, Girlanda M, Henrissat B, Herrmann S, Hess J, Högberg N, Johansson T, Khouja HR, LaButti K, Lahrmann U, Levasseur A, Lindquist EA, Lipzen A, Marmeisse R, Martino E, Murat C, Ngan CY, Nehls U, Plett JM, Pringle A, Ohm RA, Perotto S, Peter M, Riley R, Rineau F, Ruytinx J, Salamov A, Shah F, Sun H, Tarkka M, Tritt A, Veneault-Fourrey C, Zuccaro A, Tunlid A, Grigoriev IV, Hibbett DS, Martin F
Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists.
Nat Genet. 2015 Apr;47(4):410-5. doi: 10.1038/ng.3223
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.