Status
[June 2020] The Xanthophyllomyces dendrorhous UBV-AX4 genome was not sequenced by the JGI. The assembly was provided by Eric Young and it was annotated using the JGI Fungal Annotation Pipeline. For generation of this assembly, Nanopore sequencing was conducted on the Oxford Nanopore Technologies MinION and Illumina sequencing was conducted on the Illumina iSeq 100. Genome assembly and polishing was then done using the Prymetime software package.
Summary statistics for the Xanthophyllomyces dendrorhous
UBV-AX4 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 19.51 |
| Sequencing read coverage depth | 26x |
| # of contigs | 16 |
| # of scaffolds | 16 |
| # of scaffolds >= 2Kbp | 16 |
| Scaffold N50 | 5 |
| Scaffold L50 (Mbp) | 1.84 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 2.41, 2.36, 2.28 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 191343425 | 189910224 | 99.3% |
| Other | Trinity_assembled_Illumina_transcriptome | 42385 | 37027 | 87.4% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2466 | 2144 |
| transcript | 1752 | 1500 |
| exon | 224 | 132 |
| intron | 107 | 95 |
| description: | ||
| protein length (aa) | 499 | 407 |
| exons per gene | 7.83 | 6 |
| # of gene models | 6424 |
Collaborators
- Eric Young, Worchester Polytechnic Institute, Worchester, MA
Links
- JGI PhyloGroup Portals: Fungi Dikarya Basidiomycota Agaricomycotina Tremellomycetes
Funding
This project was not sequenced at the JGI.
