Status
This draft assembly was produced using Illumina data (2x150 270bp, 2x100 4kb CLIP) and assembled using the AllPathsLG assembler.
Summary statistics for the Candida arabinofermentans NRRL
YB-2248 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 13.23 |
| Sequencing read coverage depth | 74 |
| # of contigs | 244 |
| # of scaffolds | 62 |
| # of scaffolds >= 2Kbp | 52 |
| Scaffold N50 | 6 |
| Scaffold L50 (Mbp) | 0.70 |
| # of gaps | 91 |
| % of scaffold length in gaps | 1.0% |
| Three largest Scaffolds (Mbp) | 1.54, 1.38, 1.06 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | Illumina RNAseq assemblies | 16002 | 12076 | 75.5% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1615 | 1329 |
| transcript | 1544 | 1290 |
| exon | 1156 | 932 |
| intron | 214 | 95 |
| description: | ||
| protein length (aa) | 469 | 389 |
| exons per gene | 1.34 | 1 |
| # of gene models | 5861 |
Collaborators
- Thomas Jeffries, USDA Forest Service, Forest Products Laboratory
- Igor Grigoriev, DOE Joint Genome Institute
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Riley R, Haridas S, Wolfe KH, Lopes MR, Hittinger CT, Göker M, Salamov AA, Wisecaver JH, Long TM, Calvey CH, Aerts AL, Barry KW, Choi C, Clum A, Coughlan AY, Deshpande S, Douglass AP, Hanson SJ, Klenk HP, LaButti KM, Lapidus A, Lindquist EA, Lipzen AM, Meier-Kolthoff JP, Ohm RA, Otillar RP, Pangilinan JL, Peng Y, Rokas A, Rosa CA, Scheuner C, Sibirny AA, Slot JC, Stielow JB, Sun H, Kurtzman CP, Blackwell M, Grigoriev IV, Jeffries TW
Comparative genomics of biotechnologically important yeasts.
Proc Natl Acad Sci U S A. 2016 Aug 30;113(35):9882-7. doi: 10.1073/pnas.1603941113
Riley R, Haridas S, Wolfe KH, Lopes MR, Hittinger CT, Göker M, Salamov AA, Wisecaver JH, Long TM, Calvey CH, Aerts AL, Barry KW, Choi C, Clum A, Coughlan AY, Deshpande S, Douglass AP, Hanson SJ, Klenk HP, LaButti KM, Lapidus A, Lindquist EA, Lipzen AM, Meier-Kolthoff JP, Ohm RA, Otillar RP, Pangilinan JL, Peng Y, Rokas A, Rosa CA, Scheuner C, Sibirny AA, Slot JC, Stielow JB, Sun H, Kurtzman CP, Blackwell M, Grigoriev IV, Jeffries TW
Comparative genomics of biotechnologically important yeasts.
Proc Natl Acad Sci U S A. 2016 Aug 30;113(35):9882-7. doi: 10.1073/pnas.1603941113
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.
