Status
The genome of Cadophora sp. DSE1049 was sequenced using Illumina technology and assembled using AllPathsLG version R47710.
Summary statistics for the Cadophora sp. DSE1049 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 70.46 |
| Sequencing read coverage depth | 79.2x |
| # of contigs | 1294 |
| # of scaffolds | 1193 |
| # of scaffolds >= 2Kbp | 1092 |
| Scaffold N50 | 71 |
| Scaffold L50 (Mbp) | 0.24 |
| # of gaps | 101 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 1.38, 1.24, 1.23 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | Assembled_RNAseq_reads | 39120 | 38428 | 98.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1583 | 1358 |
| transcript | 1401 | 1200 |
| exon | 460 | 292 |
| intron | 91 | 58 |
| description: | ||
| protein length (aa) | 409 | 338 |
| exons per gene | 3.04 | 3 |
| # of gene models | 22766 |
Collaborators
- Joseph
Spatafora, Oregon State University, USA
- Gábor M. Kovács, Eötvös Loránd University, Budapest, Hungary
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.
