Status
[April 2018] The Halteromyces radiatus CBS 162.75 genome was sequenced with Sequel, assembled with Falcon version 1.8.8, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Halteromyces radiatus CBS
162.75 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 26.22 |
| Sequencing read coverage depth | 168.8x |
| # of contigs | 22 |
| # of scaffolds | 22 |
| # of scaffolds >= 2Kbp | 22 |
| Scaffold N50 | 4 |
| Scaffold L50 (Mbp) | 3.62 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 4.50, 4.33, 3.73 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 31066 | 29770 | 95.8% |
| Ests | est.fasta | 163127574 | 162551585 | 99.6% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1852 | 1568 |
| transcript | 1484 | 1243 |
| exon | 292 | 179 |
| intron | 92 | 79 |
| description: | ||
| protein length (aa) | 438 | 359 |
| exons per gene | 5.09 | 4 |
| # of gene models | 10175 |
Collaborators
Joey Spatafora,
Oregon State, Oregon
Jason Stajich, UC Riverside, California
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Chang Y, Wang Y, Mondo S, Ahrendt S, Andreopoulos W, Barry K, Beard J, Benny GL, Blankenship S, Bonito G, Cuomo C, Desiro A, Gervers KA, Hundley H, Kuo A, LaButti K, Lang BF, Lipzen A, O'Donnell K, Pangilinan J, Reynolds N, Sandor L, Smith ME, Tsang A, Grigoriev IV, Stajich JE, Spatafora JW
Evolution of zygomycete secretomes and the origins of terrestrial fungal ecologies.
iScience. 2022 Aug 19;25(8):104840. doi: 10.1016/j.isci.2022.104840
Chang Y, Wang Y, Mondo S, Ahrendt S, Andreopoulos W, Barry K, Beard J, Benny GL, Blankenship S, Bonito G, Cuomo C, Desiro A, Gervers KA, Hundley H, Kuo A, LaButti K, Lang BF, Lipzen A, O'Donnell K, Pangilinan J, Reynolds N, Sandor L, Smith ME, Tsang A, Grigoriev IV, Stajich JE, Spatafora JW
Evolution of zygomycete secretomes and the origins of terrestrial fungal ecologies.
iScience. 2022 Aug 19;25(8):104840. doi: 10.1016/j.isci.2022.104840
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.
