Status
[December 2023] The genome sequence of Fusarium oxysporum f.sp. cubense GD02 were not determined by the Joint Genome Institute (JGI), but were provided by Li-Jun Ma and Yong Zhang in November, 2023. This genome was sequenced with PacBio and illumina, assembled with Canu v1.8 followed by polishing by Quiver using Illumina sequences, and annotated with the JGI Annotation Pipeline.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 49.51 |
| Sequencing read coverage depth | Unknown |
| # of contigs | 56 |
| # of scaffolds | 45 |
| # of scaffolds >= 2Kbp | 45 |
| Scaffold N50 | 5 |
| Scaffold L50 (Mbp) | 4.83 |
| # of gaps | 11 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 6.62, 5.67, 4.99 |
RNA data was obtained from an infection time-course experiment and contains a large number of host reads accounting for the low mapping numbers seen below.
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 772202 | 41492 | 5.4% |
| Ests | est.fasta | 203931380 | 28856553 | 14.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1743 | 1507 |
| transcript | 1578 | 1368 |
| exon | 523 | 309 |
| intron | 83 | 56 |
| description: | ||
| protein length (aa) | 472 | 398 |
| exons per gene | 3.02 | 2 |
| # of gene models | 16427 |
Collaborators
- Yong Zhang, University of Massachusetts Amherst, USA
- Li-Jun Ma, University of Massachusetts Amherst, USA
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Sordariomycetes Hypocreomycetidae Hypocreales Nectriaceae Fusarium
- JGI EcoGroup Portals: Plant Pathogens
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.
