Status
The genome sequence and gene prediction of Rhizopus oryzae were not determined by the JGI, but were downloaded from the Rhizopus oryzae Database at the Broad Institute on April 21 2006. Please note that this copy of the genome is not maintained by Broad and is therefore not automatically updated. This copy of the genome does not include the mitochondrial chromosome or genes. The JGI Annotation Pipeline was used to add additional functional annotation to Broad's supercontigs and proteins.
Summary statistics for the Rhizopus oryzae v1.0 release
are below.
| Genome Assembly | |
| Genome Assembly size (Mbp} | 46.1 |
| # of contigs | 389 |
| # of scaffolds | 81 |
| # of scaffolds > 50 Kbp | 30 |
| Scaffold N50 | 6 |
| Scaffold L50 (Mbp) | 3.1 |
| % of scaffold length in gaps | 1.8% |
| Gene Models | genes |
| length (bp) of: | average |
| gene | 1212 |
| transcript | 1028 |
| exon | 310 |
| intron | 81 |
| description: | |
| protein length (aa) | 343 |
| exons per gene | 3.32 |
| # of gene models | 17467 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Ma LJ, Ibrahim AS, Skory C, Grabherr MG, Burger G, Butler M, Elias M, Idnurm A, Lang BF, Sone T, Abe A, Calvo SE, Corrochano LM, Engels R, Fu J, Hansberg W, Kim JM, Kodira CD, Koehrsen MJ, Liu B, Miranda-Saavedra D, O'Leary S, Ortiz-Castellanos L, Poulter R, Rodriguez-Romero J, Ruiz-Herrera J, Shen YQ, Zeng Q, Galagan J, Birren BW, Cuomo CA, Wickes BL
Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication.
PLoS Genet. 2009 Jul;5(7):e1000549. doi: 10.1371/journal.pgen.1000549
Ma LJ, Ibrahim AS, Skory C, Grabherr MG, Burger G, Butler M, Elias M, Idnurm A, Lang BF, Sone T, Abe A, Calvo SE, Corrochano LM, Engels R, Fu J, Hansberg W, Kim JM, Kodira CD, Koehrsen MJ, Liu B, Miranda-Saavedra D, O'Leary S, Ortiz-Castellanos L, Poulter R, Rodriguez-Romero J, Ruiz-Herrera J, Shen YQ, Zeng Q, Galagan J, Birren BW, Cuomo CA, Wickes BL
Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication.
PLoS Genet. 2009 Jul;5(7):e1000549. doi: 10.1371/journal.pgen.1000549
Funding
This project was not sequenced at the JGI.
