Status
The Cronartium quercuum f. sp. fusiforme genome was sequenced using the Illumina (ill-std-pe-unamp,.27kb,2x150)and 454 platforms(454-pe-ti) and assembled with AllPathsLG.
Summary statistics for the Cronartium quercuum f. sp.
fusiforme G11 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 76.57 |
| Sequencing read coverage depth | 70.4x |
| # of contigs | 10431 |
| # of scaffolds | 1198 |
| # of scaffolds >= 2Kbp | 751 |
| Scaffold N50 | 70 |
| Scaffold L50 (Mbp) | 0.31 |
| # of gaps | 9233 |
| % of scaffold length in gaps | 22.7% |
| Three largest Scaffolds (Mbp) | 1.88, 1.13, 1.04 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | RNAseq_assemblies | 237538 | 40677 | 17.1% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1538 | 1198 |
| transcript | 1161 | 868 |
| exon | 267 | 160 |
| intron | 114 | 87 |
| description: | ||
| protein length (aa) | 331 | 225 |
| exons per gene | 4.35 | 3 |
| # of gene models | 13903 |
Collaborators
John M. Davis, Ph.D., School of Forest Resources & Conservation, University of Florida
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Pendleton AL, Smith KE, Feau N, Martin FM, Grigoriev IV, Hamelin R, Nelson CD, Burleigh JG, Davis JM
Duplications and losses in gene families of rust pathogens highlight putative effectors.
Front Plant Sci. 2014;5():299. doi: 10.3389/fpls.2014.00299
Pendleton AL, Smith KE, Feau N, Martin FM, Grigoriev IV, Hamelin R, Nelson CD, Burleigh JG, Davis JM
Duplications and losses in gene families of rust pathogens highlight putative effectors.
Front Plant Sci. 2014;5():299. doi: 10.3389/fpls.2014.00299
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.
