Status
[October 2022] The Penicillium rubens UNK genome is one of two metagenome-extracted genomes from a set of contaminated samples. Sequenced by Illumina, binned DNA reads for Penicillium rubens UNK and Paraphoma fimeti UNK were assembled separately by SPAdes, and a shared transcriptome library was assembled by Trinity. Subsequently, the JGI Annotation Pipeline produced structural and functional annotations. The P. rubens UNK mitochondrial genome was assembled separately and is available in the downloads section.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 30.00 |
| Sequencing read coverage depth | 37.42x |
| # of contigs | 151 |
| # of scaffolds | 123 |
| # of scaffolds >= 2Kbp | 95 |
| Scaffold N50 | 7 |
| Scaffold L50 (Mbp) | 1.39 |
| # of gaps | 28 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 3.21, 2.79, 2.77 |
Note: this transcriptome library was determined to be a sample
heavily contaminated with Paraphoma fimeti UNK. Therefore,
mapping to Penicillium rubens UNK is low compared to typical
axenic RNAseq libraries.
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 92950 | 32668 | 35.1% |
| Ests | est.fasta | 150172547 | 65472933 | 43.6% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1898 | 1628 |
| transcript | 1723 | 1478 |
| exon | 544 | 323 |
| intron | 83 | 61 |
| description: | ||
| protein length (aa) | 486 | 401 |
| exons per gene | 3.17 | 3 |
| # of gene models | 11198 |
Collaborators
- Scott Baker at DOE Environmental Molecular Sciences Laboratory, Richland, WA, USA
- Mikael Andersen at Novozymes A/S, Denmark
Links
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Pezizomycotina Eurotiomycetes Eurotiales Penicillium
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.
