Status
June 2014. The Rhodotorula genome was sequenced using the Illumina platform and assembled using AllPathsLG release version R47710 (Gnerre et al. 2010). The genome was annotated with the JGI annotation pipeline and custom analyses.
Summary statistics for the Rhodotorula sp. JG-1b v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 19.39 |
| Sequencing read coverage depth | 134 |
| # of contigs | 164 |
| # of scaffolds | 156 |
| # of scaffolds >= 2Kbp | 142 |
| Scaffold N50 | 18 |
| Scaffold L50 (Mbp) | 0.30 |
| # of gaps | 8 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.02, 0.99, 0.92 |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2061 | 1711 |
| transcript | 1555 | 1257 |
| exon | 247 | 146 |
| intron | 97 | 75 |
| description: | ||
| protein length (aa) | 518 | 419 |
| exons per gene | 6.30 | 5 |
| # of gene models | 6680 |
Collaborators
Corien Bakermans, Altoona College, Pennsylvania State University
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Goordial J, Raymond-Bouchard I, Riley R, Ronholm J, Shapiro N, Woyke T, LaButti KM, Tice H, Amirebrahimi M, Grigoriev IV, Greer C, Bakermans C, Whyte L
Improved High-Quality Draft Genome Sequence of the Eurypsychrophile Rhodotorula sp. JG1b, Isolated from Permafrost in the Hyperarid Upper-Elevation McMurdo Dry Valleys, Antarctica.
Genome Announc. 2016 Mar 17;4(2):. doi: 10.1128/genomeA.00069-16
Goordial J, Raymond-Bouchard I, Riley R, Ronholm J, Shapiro N, Woyke T, LaButti KM, Tice H, Amirebrahimi M, Grigoriev IV, Greer C, Bakermans C, Whyte L
Improved High-Quality Draft Genome Sequence of the Eurypsychrophile Rhodotorula sp. JG1b, Isolated from Permafrost in the Hyperarid Upper-Elevation McMurdo Dry Valleys, Antarctica.
Genome Announc. 2016 Mar 17;4(2):. doi: 10.1128/genomeA.00069-16
Links
The Polar Center, Pennsylvania State University
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.
