Status
Assembly v1 (August 2014) is a minimal draft assembly. A total of 1262 scaffolds and 25.5 Mbp were assembled from Illumina gDNAs using Velvet and AllPathsLG in succession.
Summary statistics for the Ramicandelaber brevisporus CBS
109374 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 25.53 |
| Sequencing read coverage depth | 168.2x |
| # of contigs | 2789 |
| # of scaffolds | 1262 |
| # of scaffolds >= 2Kbp | 1011 |
| Scaffold N50 | 190 |
| Scaffold L50 (Mbp) | 0.04 |
| # of gaps | 1527 |
| % of scaffold length in gaps | 13.8% |
| Three largest Scaffolds (Mbp) | 0.20, 0.18, 0.15 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | JGI_RNA_contigs | 17497 | 13190 | 75.4% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1509 | 1200 |
| transcript | 1412 | 1115 |
| exon | 956 | 668 |
| intron | 205 | 106 |
| description: | ||
| protein length (aa) | 418 | 320 |
| exons per gene | 1.48 | 1 |
| # of gene models | 9281 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Amses KR, Simmons DR, Longcore JE, Mondo SJ, Seto K, Jerônimo GH, Bonds AE, Quandt CA, Davis WJ, Chang Y, Federici BA, Kuo A, LaButti K, Pangilinan J, Andreopoulos W, Tritt A, Riley R, Hundley H, Johnson J, Lipzen A, Barry K, Lang BF, Cuomo CA, Buchler NE, Grigoriev IV, Spatafora JW, Stajich JE, James TY
Diploid-dominant life cycles characterize the early evolution of Fungi.
Proc Natl Acad Sci U S A. 2022 Sep 6;119(36):e2116841119. doi: 10.1073/pnas.2116841119
Amses KR, Simmons DR, Longcore JE, Mondo SJ, Seto K, Jerônimo GH, Bonds AE, Quandt CA, Davis WJ, Chang Y, Federici BA, Kuo A, LaButti K, Pangilinan J, Andreopoulos W, Tritt A, Riley R, Hundley H, Johnson J, Lipzen A, Barry K, Lang BF, Cuomo CA, Buchler NE, Grigoriev IV, Spatafora JW, Stajich JE, James TY
Diploid-dominant life cycles characterize the early evolution of Fungi.
Proc Natl Acad Sci U S A. 2022 Sep 6;119(36):e2116841119. doi: 10.1073/pnas.2116841119
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.
