Status
[November 2019] The Golovinomyces orontii MGH1 genome was sequenced using PacBio, assembled with Falcon version 0.4.2, improved with finisherSC version 2.0, and polished with Quiver version smrtanalysis_2.3.0.140936.p5. A Hi-C library was generated by Dovetail, sequenced using Illumina HiSeq-2000, and used to improve the PacBio assembly using the "HiRise" scaffolding pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Golovinomyces orontii v4.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 211.35 |
| Sequencing read coverage depth | 16.46x |
| # of contigs | 484 |
| # of scaffolds | 123 |
| # of scaffolds >= 2Kbp | 122 |
| Scaffold N50 | 8 |
| Scaffold L50 (Mbp) | 12.24 |
| # of gaps | 361 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 14.88, 14.42, 13.88 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 236371 | 80016 | 33.9% |
| Ests | est.fasta | 502148157 | 170248872 | 33.9% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1719 | 1466 |
| transcript | 1538 | 1293 |
| exon | 467 | 271 |
| intron | 81 | 56 |
| description: | ||
| protein length (aa) | 446 | 360 |
| exons per gene | 3.29 | 3 |
| # of gene models | 12649 |
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.
