Status
This genome was sequenced, assembled and annotated as part of the Y1000+ Project and imported into MycoCosm for comparative purposes.
All published models are available as ExternalModels. In order to ensure this genome is comparable to those sequenced and annotated by the JGI, we applied standard filters to ExternalModels to produce the initial GeneCatalog. Models were excluded based on one of the following classifications: 1) association with repetitive elements, 2) pseudogenes with internal stop codons, 3) alternative isoforms or overlapping transcript models, 4) alleles on secondary scaffolds, and 5) short models lacking functional annotation. The JGI Annotation Pipeline was used to add functional annotation to the genes. Please note that this copy of the genome is not maintained by the y1000 team and is not automatically updated.
Genome Assembly | |
Genome Assembly size (Mbp) | 10.28 |
Sequencing read coverage depth | |
# of contigs | 613 |
# of scaffolds | 609 |
# of scaffolds >= 2Kbp | 384 |
Scaffold N50 | 47 |
Scaffold L50 (Mbp) | 0.06 |
# of gaps | 4 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 0.48, 0.31, 0.28 |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1388 | 1122 |
transcript | 1373 | 1113 |
exon | 1273 | 1044 |
intron | 193 | 83 |
description: | ||
protein length (aa) | 458 | 371 |
exons per gene | 1.08 | 1 |
# of gene models | 5016 |
Collaborators
- Chris Hittinger, University of Wisconsin-Madison, WI, USA
- Antonis Rokas, Vanderbilt University, TN, USA
Genome Reference(s)
Opulente DA, LaBella AL, Harrison MC, Wolters JF, Liu C, Li Y, Kominek J, Steenwyk JL, Stoneman HR, VanDenAvond J, Miller CR, Langdon QK, Silva M, Gonçalves C, Ubbelohde EJ, Li Y, Buh KV, Jarzyna M, Haase MAB, Rosa CA, ČCadež N, Libkind D, DeVirgilio JH, Hulfachor AB, Kurtzman CP, Sampaio JP, Gonçalves P, Zhou X, Shen XX, Groenewald M, Rokas A, Hittinger CT
Genomic factors shape carbon and nitrogen metabolic niche breadth across Saccharomycotina yeasts.
Science. 2024 Apr 26;384(6694):eadj4503. doi: 10.1126/science.adj4503
Links
- Y1000+ Project Homepage
- JGI PhyloGroup Portals: Fungi Dikarya Ascomycota Saccharomycotina Saccharomycetes Saccharomycetales