Status
(Jun 2016) The Laccaria bicolor CBS 559.96 genome was sequenced using Illumina, assembled using Velvet and then AllPathsLG, and annotated using the JGI Annotation Pipeline. The transcriptome was sequenced using Illumina and assembled using Trinity.
Summary statistics for the Laccaria bicolor CBS 559.96
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 43.46 |
| Sequencing read coverage depth | 127.4x |
| # of contigs | 3844 |
| # of scaffolds | 3721 |
| # of scaffolds >= 2Kbp | 2664 |
| Scaffold N50 | 364 |
| Scaffold L50 (Mbp) | 0.03 |
| # of gaps | 123 |
| % of scaffold length in gaps | 0.2% |
| Three largest Scaffolds (Mbp) | 0.40, 0.27, 0.27 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 134743255 | 131215932 | 97.4% |
| Other | JGI_RNA_contigs | 73213 | 65484 | 89.4% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1532 | 1255 |
| transcript | 1246 | 999 |
| exon | 236 | 146 |
| intron | 69 | 56 |
| description: | ||
| protein length (aa) | 371 | 288 |
| exons per gene | 5.28 | 4 |
| # of gene models | 16977 |
Collaborators
- DOE Joint Genome Institute
- Francis Martin at MycorWeb
- Annegret Kohler at MycorWeb
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.
