Status
June 2014. The genome of Corynespora cassiicola was sequenced using Illumina technology and assembled using AllPathsLG release version R47710 (Gnerre et al., 2011).
Summary statistics for the Corynespora cassiicola CCP v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 44.85 |
| Sequencing read coverage depth | 58.8x |
| # of contigs | 500 |
| # of scaffolds | 244 |
| # of scaffolds >= 2Kbp | 173 |
| Scaffold N50 | 8 |
| Scaffold L50 (Mbp) | 2.51 |
| # of gaps | 256 |
| % of scaffold length in gaps | 0.3% |
| Three largest Scaffolds (Mbp) | 4.76, 2.92, 2.67 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | Assembled_RNAseq_reads | 35066 | 34523 | 98.5% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1610 | 1385 |
| transcript | 1480 | 1270 |
| exon | 570 | 372 |
| intron | 84 | 56 |
| description: | ||
| protein length (aa) | 421 | 347 |
| exons per gene | 2.60 | 2 |
| # of gene models | 17166 |
Collaborators
- Francis Martin (INRA, France)
- Valérie Pujade-Renaud (CIRAD, France)
- Joey Spatafora (Oregon State University, USA)
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Lopez D, Ribeiro S, Label P, Fumanal B, Venisse JS, Kohler A, de Oliveira RR, Labutti K, Lipzen A, Lail K, Bauer D, Ohm RA, Barry KW, Spatafora J, Grigoriev IV, Martin FM, Pujade-Renaud V
Genome-Wide Analysis of Corynespora cassiicola Leaf Fall Disease Putative Effectors.
Front Microbiol. 2018;9():276. doi: 10.3389/fmicb.2018.00276
Lopez D, Ribeiro S, Label P, Fumanal B, Venisse JS, Kohler A, de Oliveira RR, Labutti K, Lipzen A, Lail K, Bauer D, Ohm RA, Barry KW, Spatafora J, Grigoriev IV, Martin FM, Pujade-Renaud V
Genome-Wide Analysis of Corynespora cassiicola Leaf Fall Disease Putative Effectors.
Front Microbiol. 2018;9():276. doi: 10.3389/fmicb.2018.00276
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.
