Status
[December 2023] The genome sequence of Fusarium oxysporum f.sp. cubense CAV2318 was not determined by the Joint Genome Institute (JGI), but was provided by Li-Jun Ma and Yong Zhang in November, 2023. This genome was sequenced with PacBio and illumina, assembled with ABySS, and annotated with the JGI Annotation Pipeline.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 45.18 |
| Sequencing read coverage depth | Unknown |
| # of contigs | 660 |
| # of scaffolds | 522 |
| # of scaffolds >= 2Kbp | 472 |
| Scaffold N50 | 55 |
| Scaffold L50 (Mbp) | 0.26 |
| # of gaps | 138 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 0.79, 0.70, 0.68 |
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 | 1104761 | 31694 | 2.9% |
| Ests | est.fasta | 174313091 | 50217688 | 28.8% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1777 | 1552 |
| transcript | 1621 | 1419 |
| exon | 547 | 333 |
| intron | 81 | 56 |
| description: | ||
| protein length (aa) | 471 | 396 |
| exons per gene | 2.96 | 2 |
| # of gene models | 15876 |
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.
