Status
[September 2023] This genome was sequenced with Illumina, assembled with SPAdes v3.15.2, 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) | 19.38 |
Sequencing read coverage depth | 358.23x |
# of contigs | 413 |
# of scaffolds | 401 |
# of scaffolds >= 2Kbp | 338 |
Scaffold N50 | 34 |
Scaffold L50 (Mbp) | 0.17 |
# of gaps | 12 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 0.79, 0.47, 0.45 |
ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
EstClusters | ESTclusters | 28137 | 26620 | 94.6% |
Ests | est.fasta | 161791121 | 160495331 | 99.2% |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1763 | 1564 |
transcript | 1627 | 1422 |
exon | 528 | 317 |
intron | 68 | 58 |
description: | ||
protein length (aa) | 443 | 368 |
exons per gene | 3.08 | 3 |
# of gene models | 7799 |
Collaborators
- Kyle Pomraning, Pacific Northwest National Laboratory, WA
- Scott Baker, Environmental Molecular Science Laboratory, WA
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Czajka JJ, Han Y, Kim J, Mondo SJ, Hofstad BA, Robles A, Haridas S, Riley R, LaButti K, Pangilinan J, Andreopoulos W, Lipzen A, Yan J, Wang M, Ng V, Grigoriev IV, Spatafora JW, Magnuson JK, Baker SE, Pomraning KR
Genome-scale model development and genomic sequencing of the oleaginous clade Lipomyces.
Front Bioeng Biotechnol. 2024;12():1356551. doi: 10.3389/fbioe.2024.1356551
Czajka JJ, Han Y, Kim J, Mondo SJ, Hofstad BA, Robles A, Haridas S, Riley R, LaButti K, Pangilinan J, Andreopoulos W, Lipzen A, Yan J, Wang M, Ng V, Grigoriev IV, Spatafora JW, Magnuson JK, Baker SE, Pomraning KR
Genome-scale model development and genomic sequencing of the oleaginous clade Lipomyces.
Front Bioeng Biotechnol. 2024;12():1356551. doi: 10.3389/fbioe.2024.1356551
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Saccharomycotina Saccharomycetes Saccharomycetales
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.