Status
In Aug 2015, the Dentipellis sp. KUC8613 genome was sequenced using the Illumina platform and subsequently assembled with AllPathsLG release version R44008. The genome was annotated with the JGI annotation pipeline and custom analyses.
Summary statistics for the Dentipellis sp. KUC8613 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 36.71 |
| Sequencing read coverage depth | 88.6x |
| # of contigs | 1184 |
| # of scaffolds | 425 |
| # of scaffolds >= 2Kbp | 352 |
| Scaffold N50 | 21 |
| Scaffold L50 (Mbp) | 0.48 |
| # of gaps | 759 |
| % of scaffold length in gaps | 3.2% |
| Three largest Scaffolds (Mbp) | 2.94, 1.59, 1.19 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | JGI_RNA_contigs | 38827 | 38127 | 98.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1737 | 1492 |
| transcript | 1439 | 1227 |
| exon | 263 | 160 |
| intron | 69 | 58 |
| description: | ||
| protein length (aa) | 405 | 332 |
| exons per gene | 5.47 | 4 |
| # of gene models | 14320 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Park H, Min B, Jang Y, Kim J, Lipzen A, Sharma A, Andreopoulos B, Johnson J, Riley R, Spatafora JW, Henrissat B, Kim KH, Grigoriev IV, Kim JJ, Choi IG
Comprehensive genomic and transcriptomic analysis of polycyclic aromatic hydrocarbon degradation by a mycoremediation fungus, Dentipellis sp. KUC8613.
Appl Microbiol Biotechnol. 2019 Oct;103(19):8145-8155. doi: 10.1007/s00253-019-10089-6
Park H, Min B, Jang Y, Kim J, Lipzen A, Sharma A, Andreopoulos B, Johnson J, Riley R, Spatafora JW, Henrissat B, Kim KH, Grigoriev IV, Kim JJ, Choi IG
Comprehensive genomic and transcriptomic analysis of polycyclic aromatic hydrocarbon degradation by a mycoremediation fungus, Dentipellis sp. KUC8613.
Appl Microbiol Biotechnol. 2019 Oct;103(19):8145-8155. doi: 10.1007/s00253-019-10089-6
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.
