Status
Assembly v3.0 (June 2015) is an improved draft assembly, using PacBio gDNAs assembled with Falcon, patched with FinisherSC, and polished with Quiver.
Summary statistics for the Piromyces sp. finn
v3.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 56.46 |
| Sequencing read coverage depth | ?? |
| # of contigs | 232 |
| # of scaffolds | 232 |
| # of scaffolds >= 2Kbp | 232 |
| Scaffold N50 | 25 |
| Scaffold L50 (Mbp) | 0.75 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 2.63, 1.96, 1.65 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | JGI_RNA_contigs | 17008 | 15543 | 91.4% |
| Gene Models | FilteredModels5 | |
| length (bp) of: | average | median |
| gene | 2344 | 1909 |
| transcript | 1754 | 1357 |
| exon | 354 | 158 |
| intron | 151 | 116 |
| description: | ||
| protein length (aa) | 520 | 385 |
| exons per gene | 4.95 | 3 |
| # of gene models | 10992 |
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
Mondo SJ, Dannebaum RO, Kuo RC, Louie KB, Bewick AJ, LaButti K, Haridas S, Kuo A, Salamov A, Ahrendt SR, Lau R, Bowen BP, Lipzen A, Sullivan W, Andreopoulos BB, Clum A, Lindquist E, Daum C, Northen TR, Kunde-Ramamoorthy G, Schmitz RJ, Gryganskyi A, Culley D, Magnuson J, James TY, O'Malley MA, Stajich JE, Spatafora JW, Visel A, Grigoriev IV
Widespread adenine N6-methylation of active genes in fungi.
Nat Genet. 2017 Jun;49(6):964-968. doi: 10.1038/ng.3859
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
Mondo SJ, Dannebaum RO, Kuo RC, Louie KB, Bewick AJ, LaButti K, Haridas S, Kuo A, Salamov A, Ahrendt SR, Lau R, Bowen BP, Lipzen A, Sullivan W, Andreopoulos BB, Clum A, Lindquist E, Daum C, Northen TR, Kunde-Ramamoorthy G, Schmitz RJ, Gryganskyi A, Culley D, Magnuson J, James TY, O'Malley MA, Stajich JE, Spatafora JW, Visel A, Grigoriev IV
Widespread adenine N6-methylation of active genes in fungi.
Nat Genet. 2017 Jun;49(6):964-968. doi: 10.1038/ng.3859
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.
