Status
Assembly v1 (March 2015) is a standard draft assembly, using Illumina gDNAs assembled with AllPathsLG.
Summary statistics for the Suillus granulatus EM37 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 42.34 |
| Sequencing read coverage depth | 80.3x |
| # of contigs | 1869 |
| # of scaffolds | 628 |
| # of scaffolds >= 2Kbp | 419 |
| Scaffold N50 | 24 |
| Scaffold L50 (Mbp) | 0.51 |
| # of gaps | 1241 |
| % of scaffold length in gaps | 4.0% |
| Three largest Scaffolds (Mbp) | 2.10, 2.09, 1.43 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | JGI_RNA_contigs | 44012 | 42010 | 95.5% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1595 | 1324 |
| transcript | 1298 | 1054 |
| exon | 234 | 146 |
| intron | 67 | 55 |
| description: | ||
| protein length (aa) | 379 | 295 |
| exons per gene | 5.55 | 4 |
| # of gene models | 15802 |
Collaborators
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Lofgren LA, Nguyen NH, Vilgalys R, Ruytinx J, Liao HL, Branco S, Kuo A, LaButti K, Lipzen A, Andreopoulos W, Pangilinan J, Riley R, Hundley H, Na H, Barry K, Grigoriev IV, Stajich JE, Kennedy PG
Comparative genomics reveals dynamic genome evolution in host specialist ectomycorrhizal fungi.
New Phytol. 2021 Apr;230(2):774-792. doi: 10.1111/nph.17160
Lofgren LA, Nguyen NH, Vilgalys R, Ruytinx J, Liao HL, Branco S, Kuo A, LaButti K, Lipzen A, Andreopoulos W, Pangilinan J, Riley R, Hundley H, Na H, Barry K, Grigoriev IV, Stajich JE, Kennedy PG
Comparative genomics reveals dynamic genome evolution in host specialist ectomycorrhizal fungi.
New Phytol. 2021 Apr;230(2):774-792. doi: 10.1111/nph.17160
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.
