Status
[March 2014] The Heterogastridium pycnidioideum genome
was sequenced using the Illumina platform and assembled with
AllPathsLG release version R46652 (Gnerre
et al., 2010).
Mitochondrial genome was assembled separately and is available in
the downloads section.
Summary statistics for the Heterogastridium pycnidioideum
ATCC MYA-4631 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 17.58 |
| Sequencing read coverage depth | 109x |
| # of contigs | 296 |
| # of scaffolds | 117 |
| # of scaffolds >= 2Kbp | 83 |
| Scaffold N50 | 10 |
| Scaffold L50 (Mbp) | 0.63 |
| # of gaps | 179 |
| % of scaffold length in gaps | 1.6% |
| Three largest Scaffolds (Mbp) | 1.60, 1.28, 1.04 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | Trinity assembled Illumina ESTs | 28993 | 23698 | 81.7% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1738 | 1493 |
| transcript | 1496 | 1282 |
| exon | 246 | 154 |
| intron | 50 | 45 |
| description: | ||
| protein length (aa) | 444 | 368 |
| exons per gene | 6.08 | 5 |
| # of gene models | 7658 |
Collaborators
Joseph
Spatafora, Oregon State University, USA
Mary
Catherine Aime, Purdue University, USA
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.
