Status
The genome sequence and gene prediction of Fusarium oxysporum f. sp. lycopersici have not been determined by the JGI, but were downloaded from the Broad Institute on November 14th 2015. Please note that this copy of the genome is not maintained by Broad and is therefore not automatically updated. JGI tools were used to automatically annotate predicted proteins.
Summary statistics for the Fusarium oxysporum f. sp.
lycopersici release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 61.36 |
| Sequencing read coverage depth | unknown |
| # of contigs | 1362 |
| # of scaffolds | 114 |
| # of scaffolds >= 2Kbp | 112 |
| Scaffold N50 | 11 |
| Scaffold L50 (Mbp) | 1.98 |
| # of gaps | 1248 |
| % of scaffold length in gaps | 2.3% |
| Three largest Scaffolds (Mbp) | 4.36, 4.03, 3.31 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 2185 | 1850 |
| transcript | 2027 | 1706 |
| exon | 683 | 407 |
| intron | 83 | 57 |
| description: | ||
| protein length (aa) | 435 | 366 |
| exons per gene | 2.97 | 3 |
| # of gene models | 27347 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Ma LJ, van der Does HC, Borkovich KA, Coleman JJ, Daboussi MJ, Di Pietro A, Dufresne M, Freitag M, Grabherr M, Henrissat B, Houterman PM, Kang S, Shim WB, Woloshuk C, Xie X, Xu JR, Antoniw J, Baker SE, Bluhm BH, Breakspear A, Brown DW, Butchko RA, Chapman S, Coulson R, Coutinho PM, Danchin EG, Diener A, Gale LR, Gardiner DM, Goff S, Hammond-Kosack KE, Hilburn K, Hua-Van A, Jonkers W, Kazan K, Kodira CD, Koehrsen M, Kumar L, Lee YH, Li L, Manners JM, Miranda-Saavedra D, Mukherjee M, Park G, Park J, Park SY, Proctor RH, Regev A, Ruiz-Roldan MC, Sain D, Sakthikumar S, Sykes S, Schwartz DC, Turgeon BG, Wapinski I, Yoder O, Young S, Zeng Q, Zhou S, Galagan J, Cuomo CA, Kistler HC, Rep M
Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium.
Nature. 2010 Mar 18;464(7287):367-73. doi: 10.1038/nature08850
Ma LJ, van der Does HC, Borkovich KA, Coleman JJ, Daboussi MJ, Di Pietro A, Dufresne M, Freitag M, Grabherr M, Henrissat B, Houterman PM, Kang S, Shim WB, Woloshuk C, Xie X, Xu JR, Antoniw J, Baker SE, Bluhm BH, Breakspear A, Brown DW, Butchko RA, Chapman S, Coulson R, Coutinho PM, Danchin EG, Diener A, Gale LR, Gardiner DM, Goff S, Hammond-Kosack KE, Hilburn K, Hua-Van A, Jonkers W, Kazan K, Kodira CD, Koehrsen M, Kumar L, Lee YH, Li L, Manners JM, Miranda-Saavedra D, Mukherjee M, Park G, Park J, Park SY, Proctor RH, Regev A, Ruiz-Roldan MC, Sain D, Sakthikumar S, Sykes S, Schwartz DC, Turgeon BG, Wapinski I, Yoder O, Young S, Zeng Q, Zhou S, Galagan J, Cuomo CA, Kistler HC, Rep M
Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium.
Nature. 2010 Mar 18;464(7287):367-73. doi: 10.1038/nature08850
Funding
This project was not sequenced at the JGI.
