Status
[April 2023] The Podosphaera macularis HPM-609 v1.0 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 102.28 |
| Sequencing read coverage depth | 27.71x |
| # of contigs | 149 |
| # of scaffolds | 149 |
| # of scaffolds >= 2Kbp | 149 |
| Scaffold N50 | 26 |
| Scaffold L50 (Mbp) | 1.20 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 5.05, 3.24, 2.78 |
RNA was collected from infected hop leaves. The presence of host reads accounts for the lower than expected mapping rate seen below.
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 113155 | 45881 | 40.5% |
| Ests | est.fasta | 32548195 | 29009479 | 89.1% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1750 | 1468 |
| transcript | 1583 | 1321 |
| exon | 534 | 305 |
| intron | 87 | 55 |
| description: | ||
| protein length (aa) | 461 | 368 |
| exons per gene | 2.96 | 3 |
| # of gene models | 6954 |
Collaborators
- Mary Wildermuth, University of California, Berkeley.
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Leotiomycetes
- 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.
