Status
(June 2012) This draft release was produced using Illumina data (2x76 300bp, 2x150 270bp, 2x100 4kb CLIP) and 15kb shredded data from a Newbler assembly and was assembled using the AllPathsLG assembler.
Summary statistics for the Dekkera bruxellensis CBS 2499
v2.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 13.39 |
| Sequencing read coverage depth | 127.5x |
| # of contigs | 908 |
| # of scaffolds | 84 |
| # of scaffolds >= 2Kbp | 45 |
| Scaffold N50 | 3 |
| Scaffold L50 (Mbp) | 1.79 |
| # of gaps | 824 |
| % of scaffold length in gaps | 4.4% |
| Three largest Scaffolds (Mbp) | 2.88, 2.05, 1.79 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | RNAseq_assemblies | 9759 | 8386 | 85.9% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1525 | 1251 |
| transcript | 1429 | 1203 |
| exon | 1051 | 849 |
| intron | 271 | 104 |
| description: | ||
| protein length (aa) | 440 | 365 |
| exons per gene | 1.36 | 1 |
| # of gene models | 5636 |
Collaborators
Trevor Phister, Ph.D., North Carolina State University
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Piškur J, Ling Z, Marcet-Houben M, Ishchuk OP, Aerts A, LaButti K, Copeland A, Lindquist E, Barry K, Compagno C, Bisson L, Grigoriev IV, Gabaldón T, Phister T
The genome of wine yeast Dekkera bruxellensis provides a tool to explore its food-related properties.
Int J Food Microbiol. 2012 Jul 2;157(2):202-9. doi: 10.1016/j.ijfoodmicro.2012.05.008
Piškur J, Ling Z, Marcet-Houben M, Ishchuk OP, Aerts A, LaButti K, Copeland A, Lindquist E, Barry K, Compagno C, Bisson L, Grigoriev IV, Gabaldón T, Phister T
The genome of wine yeast Dekkera bruxellensis provides a tool to explore its food-related properties.
Int J Food Microbiol. 2012 Jul 2;157(2):202-9. doi: 10.1016/j.ijfoodmicro.2012.05.008
Links
Publication:
Piškur J, Ling Z, Marcet-Houben M, Ishchuk OP, Aerts A, LaButti K, Copeland A, Lindquist E, Barry K, Compagno C, Bisson L, Grigoriev IV, Gabaldón T, Phister T (2012) The genome of wine yeast Dekkera bruxellensis provides a tool to explore its food-related properties. Int J Food Microbiol. May 14. [Epub ahead of print]
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.
