Status
[May 2015] The Colletotrichum caudatum genome was
sequenced using the Illumina platform and assembled with AllPathsLG
release version R49403 (Gnerre
et al., 2010).
Mitochondrial genome was assembled separately and is available in
the downloads section.
Summary statistics for the Colletotrichum caudatum
CBS131602 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 44.20 |
| Sequencing read coverage depth | 143x |
| # of contigs | 1381 |
| # of scaffolds | 1257 |
| # of scaffolds >= 2Kbp | 1060 |
| Scaffold N50 | 134 |
| Scaffold L50 (Mbp) | 0.09 |
| # of gaps | 124 |
| % of scaffold length in gaps | 0.2% |
| Three largest Scaffolds (Mbp) | 0.59, 0.54, 0.49 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator assembled Illumina ESTs | 41181 | 40351 | 98.0% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1600 | 1364 |
| transcript | 1452 | 1206 |
| exon | 556 | 358 |
| intron | 94 | 67 |
| description: | ||
| protein length (aa) | 401 | 318 |
| exons per gene | 2.61 | 2 |
| # of gene models | 15294 |
Collaborators
Jo Anne Crouch, Ph.D., USDA-ARS, Beltsville, MD
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Baroncelli R, Cobo-Díaz JF, Benocci T, Peng M, Battaglia E, Haridas S, Andreopoulos W, LaButti K, Pangilinan J, Lipzen A, Koriabine M, Bauer D, Le Floch G, Mäkelä MR, Drula E, Henrissat B, Grigoriev IV, Crouch JA, de Vries RP, Sukno SA, Thon MR
Genome evolution and transcriptome plasticity is associated with adaptation to monocot and dicot plants in Colletotrichum fungi.
Gigascience. 2024 Jan 2;13():. doi: 10.1093/gigascience/giae036
Baroncelli R, Cobo-Díaz JF, Benocci T, Peng M, Battaglia E, Haridas S, Andreopoulos W, LaButti K, Pangilinan J, Lipzen A, Koriabine M, Bauer D, Le Floch G, Mäkelä MR, Drula E, Henrissat B, Grigoriev IV, Crouch JA, de Vries RP, Sukno SA, Thon MR
Genome evolution and transcriptome plasticity is associated with adaptation to monocot and dicot plants in Colletotrichum fungi.
Gigascience. 2024 Jan 2;13():. doi: 10.1093/gigascience/giae036
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.
