Status
May 2012. The genome of Cochliobolus miyabeanus ATCC 44560 was sequenced using Illumina technology and assembled using Velvet (version 1.1.04) and ALLPATHS (version r41043). There are no ESTs available for this organism.
Summary statistics for the Cochliobolus miyabeanus ATCC
44560 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 31.36 |
| Sequencing read coverage depth | 191x |
| # of contigs | 667 |
| # of scaffolds | 619 |
| # of scaffolds >= 2Kbp | 498 |
| Scaffold N50 | 68 |
| Scaffold L50 (Mbp) | 0.13 |
| # of gaps | 48 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 0.64, 0.50, 0.42 |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1479 | 1245 |
| transcript | 1339 | 1116 |
| exon | 506 | 281 |
| intron | 88 | 58 |
| description: | ||
| protein length (aa) | 446 | 372 |
| exons per gene | 2.65 | 2 |
| # of gene models | 12007 |
Collaborators
B. Gillian Turgeon, Cornell University, USA
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
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.
