Status
The genome sequence and gene predictions were obtained from
Jeffrey Skerker on Oct 4, 2015.
Please cite:
Shuyan Zhang, Jeffrey M. Skerker, Charles D. Rutter, Matthew J.
Maurer, Adam P. Arkin, and Christopher V. Rao., 2015. Engineering
Rhodosporidium toruloides for increased lipid production.
Biotechnology and Bioengineering
Summary statistics for the Rhodosporidium toruloides
IFO1236_1 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 20.45 |
| Sequencing read coverage depth | |
| # of contigs | 251 |
| # of scaffolds | 223 |
| # of scaffolds >= 2Kbp | 194 |
| Scaffold N50 | 21 |
| Scaffold L50 (Mbp) | 0.28 |
| # of gaps | 28 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.21, 0.81, 0.74 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 2195 | 1815 |
| transcript | 1697 | 1368 |
| exon | 258 | 150 |
| intron | 91 | 64 |
| description: | ||
| protein length (aa) | 566 | 456 |
| exons per gene | 6.59 | 6 |
| # of gene models | 7479 |
Collaborators
Jeffrey Skerker, UC Berkeley
Adam P. Arkin, UC Berkeley
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Zhang S, Skerker JM, Rutter CD, Maurer MJ, Arkin AP, Rao CV
Engineering Rhodosporidium toruloides for increased lipid production.
Biotechnol Bioeng. 2016 May;113(5):1056-66. doi: 10.1002/bit.25864
Zhang S, Skerker JM, Rutter CD, Maurer MJ, Arkin AP, Rao CV
Engineering Rhodosporidium toruloides for increased lipid production.
Biotechnol Bioeng. 2016 May;113(5):1056-66. doi: 10.1002/bit.25864
Funding
This project was not sequenced at the JGI.
