Status
v1.0 (September, 2010): The assembly release version 1.0 of Septoria musiva SO2202 was generated using the Newbler assembler with Roche 454 reads as well as shredded consensus from Velvet assembled Illumina Solexa reads.
Summary statistics for the Septoria musiva SO2202 v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 29.35 |
| Sequencing read coverage depth | 35 |
| # of contigs | 706 |
| # of scaffolds | 72 |
| # of scaffolds >= 2Kbp | 72 |
| Scaffold N50 | 5 |
| Scaffold L50 (Mbp) | 2.04 |
| # of gaps | 317 |
| % of scaffold length in gaps | 1.5% |
| Three largest Scaffolds (Mbp) | 5.11, 3.62, 2.68 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 10652 | 10532 | 98.9% |
| Ests | ESTs | 2133496 | 2107601 | 98.8% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2009 | 1687 |
| transcript | 1841 | 1545 |
| exon | 756 | 405 |
| intron | 119 | 72 |
| description: | ||
| protein length (aa) | 450 | 372 |
| exons per gene | 2.44 | 2 |
| # of gene models | 10233 |
Collaborators
- Richard Hamelin, Ph.D., Laurentian Forestry Centre, Canadian Forest Service
- Stephen B. Goodwin, Ph.D., USDA-ARS, Purdue University
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Ohm RA, Feau N, Henrissat B, Schoch CL, Horwitz BA, Barry KW, Condon BJ, Copeland AC, Dhillon B, Glaser F, Hesse CN, Kosti I, LaButti K, Lindquist EA, Lucas S, Salamov AA, Bradshaw RE, Ciuffetti L, Hamelin RC, Kema GH, Lawrence C, Scott JA, Spatafora JW, Turgeon BG, de Wit PJ, Zhong S, Goodwin SB, Grigoriev IV
Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi.
PLoS Pathog. 2012;8(12):e1003037. doi: 10.1371/journal.ppat.1003037
Dhillon B, Feau N, Aerts AL, Beauseigle S, Bernier L, Copeland A, Foster A, Gill N, Henrissat B, Herath P, LaButti KM, Levasseur A, Lindquist EA, Majoor E, Ohm RA, Pangilinan JL, Pribowo A, Saddler JN, Sakalidis ML, de Vries RP, Grigoriev IV, Goodwin SB, Tanguay P, Hamelin RC
Horizontal gene transfer and gene dosage drives adaptation to wood colonization in a tree pathogen.
Proc Natl Acad Sci U S A. 2015 Mar 17;112(11):3451-6. doi: 10.1073/pnas.1424293112
Ohm RA, Feau N, Henrissat B, Schoch CL, Horwitz BA, Barry KW, Condon BJ, Copeland AC, Dhillon B, Glaser F, Hesse CN, Kosti I, LaButti K, Lindquist EA, Lucas S, Salamov AA, Bradshaw RE, Ciuffetti L, Hamelin RC, Kema GH, Lawrence C, Scott JA, Spatafora JW, Turgeon BG, de Wit PJ, Zhong S, Goodwin SB, Grigoriev IV
Diverse lifestyles and strategies of plant pathogenesis encoded in the genomes of eighteen Dothideomycetes fungi.
PLoS Pathog. 2012;8(12):e1003037. doi: 10.1371/journal.ppat.1003037
Dhillon B, Feau N, Aerts AL, Beauseigle S, Bernier L, Copeland A, Foster A, Gill N, Henrissat B, Herath P, LaButti KM, Levasseur A, Lindquist EA, Majoor E, Ohm RA, Pangilinan JL, Pribowo A, Saddler JN, Sakalidis ML, de Vries RP, Grigoriev IV, Goodwin SB, Tanguay P, Hamelin RC
Horizontal gene transfer and gene dosage drives adaptation to wood colonization in a tree pathogen.
Proc Natl Acad Sci U S A. 2015 Mar 17;112(11):3451-6. doi: 10.1073/pnas.1424293112
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.
