Status
The genome sequence and gene models of Puccinia coronata avenae 12NC29 were not determined by the Joint Genome Institute (JGI), but were provided by the Figueroa lab on August 4th, 2017. In order to allow comparative analyses with other fungal genomes sequenced by the JGI, a copy of this genome is incorporated into Mycocosm. JGI tools were used to automatically annotate predicted proteins. Please note that this copy of the genome is not maintained by the Figueroa lab and is therefore not automatically updated.
If you use this genome in your research, please cite:
Miller, M. E., Zhang, Y., Omidvar, V., Sperschneider, J., Schwessinger, B., Raley, C., Palmer, J. M., Garnica, D., Upadhyayah, N., Rathjen, J., Taylor, J. M., Park, R. F., Dodds, P. N., Hirsch, C. D., Kianian, S. F. and Figueroa, M. 2017. De novo assembly and phasing of dikaryotic genomes from two isolates of Puccinia coronata f. sp. avenae, the causal agent of oat crown rust. BioRxiv. https://doi.org/10.1101/179226
| Genome Assembly | |
| Genome Assembly size (Mbp) | 166.28 |
| Sequencing read coverage depth | |
| # of contigs | 1727 |
| # of scaffolds | 1727 |
| # of scaffolds >= 2Kbp | 1724 |
| Scaffold N50 | 286 |
| Scaffold L50 (Mbp) | 0.17 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.19, 0.95, 0.81 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1545 | 1184 |
| transcript | 1127 | 825 |
| exon | 253 | 145 |
| intron | 123 | 89 |
| description: | ||
| protein length (aa) | 376 | 275 |
| exons per gene | 4.45 | 3 |
| # of gene models | 28270 |
Collaborators
Melania Figueroa, University of Minnesota
Genome Reference(s)
Nazareno ES, Li F, Smith M, Park RF, Kianian SF, Figueroa M
Puccinia coronata f. sp. avenae: a threat to global oat production.
Mol Plant Pathol. 2018 May;19(5):1047-1060. doi: 10.1111/mpp.12608
