Status
v2.0 (September 2010):The Hansenula polymorpha NCYC 495 leu1.1 finished genome sequence assembly v2.0 was built with the Newbler assembler using whole genome shotgun and paired end sequencing reads, followed by assembly polishing. Assembly sequencing was performed using Roche (454) and fosmid (Sanger) data, and improved with one round of primer walking plus manual inspection and finishing. The nuclear genome sequence from this finished assembly was annotated using the JGI Genome Annotation Pipeline and custom analyses.
Summary statistics for the Hansenula polymorpha NCYC 495
leu1.1 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 8.97 |
| Sequencing read coverage depth | Finished |
| # of contigs | 9 |
| # of scaffolds | 7 |
| # of scaffolds >= 2Kbp | 7 |
| Scaffold N50 | 4 |
| Scaffold L50 (Mbp) | 1.30 |
| # of gaps | 1 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.54, 1.52, 1.36 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | EstClusters | 5162 | 4941 | 95.7% |
| Ests | Ests | 887515 | 844213 | 95.1% |
| Other | GenBankFlCdna | 156 | 138 | 88.5% |
| Gene Models | FilteredModels2 | |
| length (bp) of: | average | median |
| gene | 1990 | 1623 |
| transcript | 1949 | 1605 |
| exon | 1621 | 1326 |
| intron | 205 | 47 |
| description: | ||
| protein length (aa) | 449 | 381 |
| exons per gene | 1.20 | 1 |
| # of gene models | 5177 |
Collaborators
- Principal Investigator: Sybirny A.A.,PhD. Director, Institute of Cell Biology, NAS of Ukraine.
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
Links
- The Hansenula polymorpha NCYC 495 leu1.1 v1.0 JGI portal (Hanpo1)
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.
