Status
Assembly v1 (March 2011) is a draft assembly of Sanger gDNA reads and shredded Velvet contigs. The latter were assembled from Solexa gDNA reads. A total of 1656 scaffolds and 71.0 Mbp were assembled using Newbler.
Summary statistics for the Piromyces sp. E2 v1.0 release
are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 71.02 |
| Sequencing read coverage depth | median ~6x, mean ~20x |
| # of contigs | 17217 |
| # of scaffolds | 1656 |
| # of scaffolds >= 2Kbp | 1656 |
| Scaffold N50 | 143 |
| Scaffold L50 (Mbp) | 0.14 |
| # of gaps | 15561 |
| % of scaffold length in gaps | 39.7% |
| Three largest Scaffolds (Mbp) | 0.84, 0.64, 0.64 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | ESTs | 17080 | 12116 | 70.9% |
| Other | EST_cluster_consensi | 4947 | 2841 | 57.4% |
| Other | NCBI_CDSs | 8 | 5 | 62.5% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1674 | 1180 |
| transcript | 1183 | 852 |
| exon | 383 | 164 |
| intron | 237 | 128 |
| description: | ||
| protein length (aa) | 387 | 277 |
| exons per gene | 3.09 | 2 |
| # of gene models | 14648 |
Collaborators
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Haitjema CH, Gilmore SP, Henske JK, Solomon KV, de Groot R, Kuo A, Mondo SJ, Salamov AA, LaButti K, Zhao Z, Chiniquy J, Barry K, Brewer HM, Purvine SO, Wright AT, Hainaut M, Boxma B, van Alen T, Hackstein JHP, Henrissat B, Baker SE, Grigoriev IV, O'Malley MA
A parts list for fungal cellulosomes revealed by comparative genomics.
Nat Microbiol. 2017 May 30;2():17087. doi: 10.1038/nmicrobiol.2017.87
Haitjema CH, Gilmore SP, Henske JK, Solomon KV, de Groot R, Kuo A, Mondo SJ, Salamov AA, LaButti K, Zhao Z, Chiniquy J, Barry K, Brewer HM, Purvine SO, Wright AT, Hainaut M, Boxma B, van Alen T, Hackstein JHP, Henrissat B, Baker SE, Grigoriev IV, O'Malley MA
A parts list for fungal cellulosomes revealed by comparative genomics.
Nat Microbiol. 2017 May 30;2():17087. doi: 10.1038/nmicrobiol.2017.87
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.
