Status
Neurospora tetrasperma FGSC 2509 mat a, v1.0 (Nov 2009): This
assembly was produced using two sequencing technologies: Roche
(454) and Sanger.
The assembly for the main genome was done with Newbler and post processed using JGI gapResolution software.
The assembly for the main genome was done with Newbler and post processed using JGI gapResolution software.
| Genome Assembly: | Neurospora tetrasperma FGSC 2509 mat a, v1.0 |
Neurospora tetrasperma FGSC 2508 mat A, v1.0 |
| Sequencing platform | Hybrid 454/Sanger | Sanger |
| Scaffold count | 307 | 155 |
| All contig count | 1070 | 542 |
| Scaffold sequence bases total | 39.2 Mb | 37.8 Mb |
| Scaffolded (large) contig sequence bases total | 38.2 MB | 37.6 MB |
| Estimated % sequence bases in gaps | 2.71 % | 0.50 % |
| Scaffold N50 | 3 | 13 |
| Contig N50 | 135 | 69 |
| Number of scaffolds > 50.0 Kb: | 7 | 74 |
| % in scaffolds > 50.0 Kb: | 98.2 % | 97.0 % |
Neurospora tetrasperma FGSC 2509 mat a, v1.0 (Nov 2009): The
assembly was annotated with the JGI Annotation Pipeline, using a
variety of homology-based and ab initio gene predictors.
After filtering for EST support, completeness, and homology support, a total of 11,192 genes were structurally and functionally annotated.
After filtering for EST support, completeness, and homology support, a total of 11,192 genes were structurally and functionally annotated.
| Genome Annotation: | Neurospora tetrasperma FGSC 2509 mat a, v1.0 |
Neurospora tetrasperma FGSC 2508 mat A, v1.0 |
| # gene models: | 11,192 | 10,640 |
| Gene density(genes/Mb scaffold): | 286 | 281 |
| Avg.gene length: | 1741 | 1780 |
| Avg. protein length: | 443 | 462 |
| Avg. exon frequency: | 2.7 exons/gene | 2.8 exons/gene |
| Avg. exon length: | 548 | 558 |
| Avg. intron length: | 152 | 131 |
| % complete gene models (with start and stop codons): | 92% | 94% |
| % genes with homology support: | 87% | 87% |
| % genes with Pfam domains: | 46% | 42% |
Collaborators
- John Taylor, Department of Plant and Microbial Biology, University of California, Berkeley
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Ellison CE, Stajich JE, Jacobson DJ, Natvig DO, Lapidus A, Foster B, Aerts A, Riley R, Lindquist EA, Grigoriev IV, Taylor JW
Massive changes in genome architecture accompany the transition to self-fertility in the filamentous fungus Neurospora tetrasperma.
Genetics. 2011 Sep;189(1):55-69. doi: 10.1534/genetics.111.130690
Ellison CE, Stajich JE, Jacobson DJ, Natvig DO, Lapidus A, Foster B, Aerts A, Riley R, Lindquist EA, Grigoriev IV, Taylor JW
Massive changes in genome architecture accompany the transition to self-fertility in the filamentous fungus Neurospora tetrasperma.
Genetics. 2011 Sep;189(1):55-69. doi: 10.1534/genetics.111.130690
Funding
This work was performed under the auspices of the US Department of
Energy's Office of Science, Biological and Environmental Research
Program, and by the University of California, Lawrence Berkeley
National Laboratory under contract No. DE-AC02-05CH11231, Lawrence
Livermore National Laboratory under Contract No. DE-AC52-07NA27344,
and Los Alamos National Laboratory under contract No.
DE-AC02-06NA25396.
