Status
Assembly v1.0 (November 2015). Coniophora olivacea was sequenced using Illumina HiSeq platform and assembled with AllPathsLG to produce a main assembly with 863 scaffolds and 39.07 Mb.
Summary statistics for the Coniophora olivacea v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 39.07 |
| Sequencing read coverage depth | 137.7x |
| # of contigs | 990 |
| # of scaffolds | 863 |
| # of scaffolds >= 2Kbp | 682 |
| Scaffold N50 | 80 |
| Scaffold L50 (Mbp) | 0.14 |
| # of gaps | 127 |
| % of scaffold length in gaps | 0.2% |
| Three largest Scaffolds (Mbp) | 0.79, 0.67, 0.66 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 95854073 | 93787344 | 97.8% |
| Other | Assembled_EST_contigs | 66567 | 64717 | 97.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1768 | 1530 |
| transcript | 1440 | 1215 |
| exon | 249 | 152 |
| intron | 70 | 59 |
| description: | ||
| protein length (aa) | 415 | 336 |
| exons per gene | 5.79 | 5 |
| # of gene models | 14928 |
Collaborators
Joseph
Spataphora, Oregon State University
Lucía
Ramírez, Public Universiy of Navarre
Antonio G. Pisabarro,
Public Universiy of Navarre
Raúl
Castanera, Public University of Navarre
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Castanera R, Pérez G, López-Varas L, Amselem J, LaButti K, Singan V, Lipzen A, Haridas S, Barry K, Grigoriev IV, Pisabarro AG, Ramírez L
Comparative genomics of Coniophora olivacea reveals different patterns of genome expansion in Boletales.
BMC Genomics. 2017 Nov 16;18(1):883. doi: 10.1186/s12864-017-4243-z
Castanera R, Pérez G, López-Varas L, Amselem J, LaButti K, Singan V, Lipzen A, Haridas S, Barry K, Grigoriev IV, Pisabarro AG, Ramírez L
Comparative genomics of Coniophora olivacea reveals different patterns of genome expansion in Boletales.
BMC Genomics. 2017 Nov 16;18(1):883. doi: 10.1186/s12864-017-4243-z
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.
