Status
June 2014. The Obba rivulosa genome was sequenced using Illumina technology and assembled with AllPathsLG release version R46652 (Gnerre et al. 2010).
Summary statistics for the Obba rivulosa 3A-2 v1.0 release
are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 34.04 |
| Sequencing read coverage depth | 127 |
| # of contigs | 808 |
| # of scaffolds | 712 |
| # of scaffolds >= 2Kbp | 582 |
| Scaffold N50 | 85 |
| Scaffold L50 (Mbp) | 0.12 |
| # of gaps | 96 |
| % of scaffold length in gaps | 0.2% |
| Three largest Scaffolds (Mbp) | 0.72, 0.50, 0.46 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | JGI_RNA_contigs | 28471 | 27706 | 97.3% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1764 | 1497 |
| transcript | 1432 | 1204 |
| exon | 238 | 147 |
| intron | 68 | 57 |
| description: | ||
| protein length (aa) | 406 | 328 |
| exons per gene | 6.02 | 5 |
| # of gene models | 13206 |
Collaborators
Joseph Spatafora, Oregon State University
Laszlo Nagy, Clark University
Otto Miettinen, Clark University
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Miettinen O, Riley R, Barry K, Cullen D, de Vries RP, Hainaut M, Hatakka A, Henrissat B, Hildén K, Kuo R, LaButti K, Lipzen A, Mäkelä MR, Sandor L, Spatafora JW, Grigoriev IV, Hibbett DS
Draft Genome Sequence of the White-Rot Fungus Obba rivulosa 3A-2.
Genome Announc. 2016 Sep 15;4(5):. doi: 10.1128/genomeA.00976-16
Miettinen O, Riley R, Barry K, Cullen D, de Vries RP, Hainaut M, Hatakka A, Henrissat B, Hildén K, Kuo R, LaButti K, Lipzen A, Mäkelä MR, Sandor L, Spatafora JW, Grigoriev IV, Hibbett DS
Draft Genome Sequence of the White-Rot Fungus Obba rivulosa 3A-2.
Genome Announc. 2016 Sep 15;4(5):. doi: 10.1128/genomeA.00976-16
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.
