Status
[May 2020] The Fusarium oxysporum f. sp. matthiolae strain PHW726 genome was assembled and publised by Yu et. al. (2020) using a combination of PacBio (21X coverage) and Illumina sequencing (119X coverage). The JGI Fungal Annotation Pipeline was used to predict gene models and provide functional annotation. This work was supported by the National Science Foundation (IOS-1652641).
Summary statistics for the Fusarium oxysporum f. sp.
matthiolae PHW726 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 57.22 |
| Sequencing read coverage depth | See Above |
| # of contigs | 582 |
| # of scaffolds | 582 |
| # of scaffolds >= 2Kbp | 502 |
| Scaffold N50 | 18 |
| Scaffold L50 (Mbp) | 0.77 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 3.56, 2.87, 2.26 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 47130 | 39879 | 84.6% |
| Ests | est.fasta | 190612210 | 180950067 | 94.9% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1707 | 1462 |
| transcript | 1537 | 1325 |
| exon | 511 | 306 |
| intron | 87 | 56 |
| description: | ||
| protein length (aa) | 464 | 386 |
| exons per gene | 3.01 | 2 |
| # of gene models | 17996 |
Collaborators
- Li-Jun Ma, University of Massachusetts Amherst, USA
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Sordariomycetes Hypocreales Nectriaceae Fusarium
Funding
This project was not sequenced at the JGI.
