Status
[July 2019] The Daldinia eschscholtzii FL0578 v1.0 genome was sequenced with Illumina, assembled with SPAdes, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Daldinia eschscholtzii FL0578
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 36.82 |
| Sequencing read coverage depth | 140.6x |
| # of contigs | 222 |
| # of scaffolds | 219 |
| # of scaffolds >= 2Kbp | 191 |
| Scaffold N50 | 27 |
| Scaffold L50 (Mbp) | 0.48 |
| # of gaps | 3 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.62, 1.21, 0.90 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 49610 | 48315 | 97.4% |
| Ests | est.fasta | 147958527 | 146705914 | 99.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2025 | 1799 |
| transcript | 1856 | 1638 |
| exon | 625 | 395 |
| intron | 88 | 66 |
| description: | ||
| protein length (aa) | 485 | 411 |
| exons per gene | 2.97 | 3 |
| # of gene models | 11046 |
Collaborators
- Jana M. U'Ren, University of Arizona, AZ
- A. Elizabeth Arnold, University of Arizona, AZ
- Jennifer H. Wisecaver, Purdue University, IN
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Franco MEE, Wisecaver JH, Arnold AE, Ju YM, Slot JC, Ahrendt S, Moore LP, Eastman KE, Scott K, Konkel Z, Mondo SJ, Kuo A, Hayes RD, Haridas S, Andreopoulos B, Riley R, LaButti K, Pangilinan J, Lipzen A, Amirebrahimi M, Yan J, Adam C, Keymanesh K, Ng V, Louie K, Northen T, Drula E, Henrissat B, Hsieh HM, Youens-Clark K, Lutzoni F, Miadlikowska J, Eastwood DC, Hamelin RC, Grigoriev IV, U'Ren JM
Ecological generalism drives hyperdiversity of secondary metabolite gene clusters in xylarialean endophytes.
New Phytol. 2022 Feb;233(3):1317-1330. doi: 10.1111/nph.17873
Franco MEE, Wisecaver JH, Arnold AE, Ju YM, Slot JC, Ahrendt S, Moore LP, Eastman KE, Scott K, Konkel Z, Mondo SJ, Kuo A, Hayes RD, Haridas S, Andreopoulos B, Riley R, LaButti K, Pangilinan J, Lipzen A, Amirebrahimi M, Yan J, Adam C, Keymanesh K, Ng V, Louie K, Northen T, Drula E, Henrissat B, Hsieh HM, Youens-Clark K, Lutzoni F, Miadlikowska J, Eastwood DC, Hamelin RC, Grigoriev IV, U'Ren JM
Ecological generalism drives hyperdiversity of secondary metabolite gene clusters in xylarialean endophytes.
New Phytol. 2022 Feb;233(3):1317-1330. doi: 10.1111/nph.17873
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Sordariomycetes Xylariales
- JGI Endophytic fungi EcoGroup portal
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.
