Status
The phased genome sequence and gene models for Puccinia graminis f. sp. tritici Ug99 haplotype C were not determined by the Joint Genome Institute (JGI), but were provided by Feng Li on Sept 19, 2019. In order to allow comparative analyses with other fungal genomes sequenced by the JGI, a copy of this genome is incorporated into Mycocosm. Any contigs and associated gene models that could not be confidently phased from haplotype A are also included here.
Summary statistics for the Puccinia graminis f. sp.
tritici Ug99 haplotype C release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 86.82 |
Sequencing read coverage depth | |
# of contigs | 215 |
# of scaffolds | 215 |
# of scaffolds >= 2Kbp | 215 |
Scaffold N50 | 28 |
Scaffold L50 (Mbp) | 0.92 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 3.02, 2.92, 2.43 |
Gene Models | ExternalModels | |
length (bp) of: | average | median |
gene | 1568 | 1225 |
transcript | 1198 | 876 |
exon | 305 | 171 |
intron | 129 | 89 |
description: | ||
protein length (aa) | 339 | 236 |
exons per gene | 3.93 | 3 |
# of gene models | 18536 |
Collaborators
Melania Figueroa, CSIRO, Australia
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Li F, Upadhyaya NM, Sperschneider J, Matny O, Nguyen-Phuc H, Mago R, Raley C, Miller ME, Silverstein KAT, Henningsen E, Hirsch CD, Visser B, Pretorius ZA, Steffenson BJ, Schwessinger B, Dodds PN, Figueroa M
Emergence of the Ug99 lineage of the wheat stem rust pathogen through somatic hybridisation.
Nat Commun. 2019 Nov 7;10(1):5068. doi: 10.1038/s41467-019-12927-7
Li F, Upadhyaya NM, Sperschneider J, Matny O, Nguyen-Phuc H, Mago R, Raley C, Miller ME, Silverstein KAT, Henningsen E, Hirsch CD, Visser B, Pretorius ZA, Steffenson BJ, Schwessinger B, Dodds PN, Figueroa M
Emergence of the Ug99 lineage of the wheat stem rust pathogen through somatic hybridisation.
Nat Commun. 2019 Nov 7;10(1):5068. doi: 10.1038/s41467-019-12927-7
Links
- JGI PhyloGroup Portals: Fungi Dikarya Basidiomycota Pucciniomycotina Pucciniales
- Plant Pathogens MycoCosm EcoGroup portal
Funding
This project was not sequenced at the JGI.