Status
[February 2021] The nuclear genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. The transcriptome was extracted from conspecific strain FC60 as an FC184 transcriptome was not available. The transcriptome was sequenced with Illumina and assembled with Trinity. Due to limited material, the genome assembly is not complete and thus RNA mapping rate is low. The mitochondrial genome was assembled separately and is available on the Download page.
Summary statistics for the Suillus grisellus FC184 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 27.16 |
| Sequencing read coverage depth | 201.82x |
| # of contigs | 1385 |
| # of scaffolds | 1385 |
| # of scaffolds >= 2Kbp | 1385 |
| Scaffold N50 | 282 |
| Scaffold L50 (Mbp) | 0.03 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 0.16, 0.16, 0.15 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 128713106 | 97080768 | 75.4% |
| Other | JGI_RNA_contigs | 122887 | 66860 | 54.4% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1723 | 1495 |
| transcript | 1399 | 1200 |
| exon | 229 | 145 |
| intron | 65 | 55 |
| description: | ||
| protein length (aa) | 410 | 334 |
| exons per gene | 6.11 | 5 |
| # of gene models | 10170 |
Collaborators
- Nhu Nguyen at U. Hawaii at Manoa
- Amanda certano at U. Minnesota
- Brian Looney at Duke U.
- Sara Branco at Montana State U.
- Hui-Ling Liao at U. Florida
- Peter Kennedy at U. Minnesota
- Rytas Vilgalys at Duke U.
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.
