Status
Version
2.0. (May 2012). This draft assembly of Cochliobolus
lunatus was sequenced using
Illumina technology and assembled using AllPathsLG (release version
R40295). This second version is an improved annotation compared to
version 1. The exact same assembly and ESTs were used as
input.
Summary statistics for the Cochliobolus lunatus m118 v2.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 31.17 |
| Sequencing read coverage depth | 129.5x |
| # of contigs | 240 |
| # of scaffolds | 171 |
| # of scaffolds >= 2Kbp | 117 |
| Scaffold N50 | 10 |
| Scaffold L50 (Mbp) | 1.53 |
| # of gaps | 69 |
| % of scaffold length in gaps | 0.2% |
| Three largest Scaffolds (Mbp) | 2.00, 1.93, 1.71 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | ESTs ** | 14947 | 12296 | 82.3% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1538 | 1294 |
| transcript | 1397 | 1167 |
| exon | 537 | 313 |
| intron | 90 | 59 |
| description: | ||
| protein length (aa) | 444 | 370 |
| exons per gene | 2.60 | 2 |
| # of gene models | 12131 |
Collaborators
- B. Gillian Turgeon, Cornell University
- Nada Krasevec, National Institute of Chemistry, Ljubljana, Slovenia
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Condon BJ, Leng Y, Wu D, Bushley KE, Ohm RA, Otillar R, Martin J, Schackwitz W, Grimwood J, MohdZainudin N, Xue C, Wang R, Manning VA, Dhillon B, Tu ZJ, Steffenson BJ, Salamov A, Sun H, Lowry S, LaButti K, Han J, Copeland A, Lindquist E, Barry K, Schmutz J, Baker SE, Ciuffetti LM, Grigoriev IV, Zhong S, Turgeon BG
Comparative genome structure, secondary metabolite, and effector coding capacity across Cochliobolus pathogens.
PLoS Genet. 2013;9(1):e1003233. doi: 10.1371/journal.pgen.1003233
Condon BJ, Leng Y, Wu D, Bushley KE, Ohm RA, Otillar R, Martin J, Schackwitz W, Grimwood J, MohdZainudin N, Xue C, Wang R, Manning VA, Dhillon B, Tu ZJ, Steffenson BJ, Salamov A, Sun H, Lowry S, LaButti K, Han J, Copeland A, Lindquist E, Barry K, Schmutz J, Baker SE, Ciuffetti LM, Grigoriev IV, Zhong S, Turgeon BG
Comparative genome structure, secondary metabolite, and effector coding capacity across Cochliobolus pathogens.
PLoS Genet. 2013;9(1):e1003233. doi: 10.1371/journal.pgen.1003233
Links
- Portal for Cochliobolus lunatus (version 1)
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.
