Status
Assembly v1 (September 2014) is a minimal draft assembly of Illumina gDNAs using successively Velvet and AllPathsLG.
Summary statistics for the Periconia macrospinosa DSE2036
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 54.99 |
| Sequencing read coverage depth | 139.4x |
| # of contigs | 2470 |
| # of scaffolds | 1566 |
| # of scaffolds >= 2Kbp | 1217 |
| Scaffold N50 | 101 |
| Scaffold L50 (Mbp) | 0.14 |
| # of gaps | 904 |
| % of scaffold length in gaps | 1.8% |
| Three largest Scaffolds (Mbp) | 1.32, 0.77, 0.70 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | JGI_RNA_contigs | 40915 | 38019 | 92.9% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1564 | 1340 |
| transcript | 1418 | 1202 |
| exon | 537 | 338 |
| intron | 91 | 61 |
| description: | ||
| protein length (aa) | 411 | 337 |
| exons per gene | 2.64 | 2 |
| # of gene models | 18750 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Knapp DG, Németh JB, Barry K, Hainaut M, Henrissat B, Johnson J, Kuo A, Lim JHP, Lipzen A, Nolan M, Ohm RA, Tamás L, Grigoriev IV, Spatafora JW, Nagy LG, Kovács GM
Comparative genomics provides insights into the lifestyle and reveals functional heterogeneity of dark septate endophytic fungi.
Sci Rep. 2018 Apr 20;8(1):6321. doi: 10.1038/s41598-018-24686-4
Knapp DG, Németh JB, Barry K, Hainaut M, Henrissat B, Johnson J, Kuo A, Lim JHP, Lipzen A, Nolan M, Ohm RA, Tamás L, Grigoriev IV, Spatafora JW, Nagy LG, Kovács GM
Comparative genomics provides insights into the lifestyle and reveals functional heterogeneity of dark septate endophytic fungi.
Sci Rep. 2018 Apr 20;8(1):6321. doi: 10.1038/s41598-018-24686-4
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.
