Status
The genome sequence and gene models of Homolaphlyctis polyrhiza JEL142 were not determined by the Joint Genome Institute (JGI), but were provided by the Stajich lab in June, 2016. 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 Stajich lab and is therefore not automatically updated.
Please contact the Stajich lab for permission to use this genome in your research.
Summary statistics for the Homoloaphlyctis polyrhiza
JEL142 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 21.32 |
| Sequencing read coverage depth | NA |
| # of contigs | 3928 |
| # of scaffolds | 3517 |
| # of scaffolds >= 2Kbp | 2146 |
| Scaffold N50 | 577 |
| Scaffold L50 (Mbp) | 0.01 |
| # of gaps | 411 |
| % of scaffold length in gaps | 13.7% |
| Three largest Scaffolds (Mbp) | 0.11, 0.07, 0.06 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1606 | 1268 |
| transcript | 1149 | 906 |
| exon | 279 | 173 |
| intron | 148 | 106 |
| description: | ||
| protein length (aa) | 383 | 302 |
| exons per gene | 4.13 | 3 |
| # of gene models | 7123 |
Collaborators
Jason Stajich, University of California, Riverside
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Joneson S, Stajich JE, Shiu SH, Rosenblum EB
Genomic transition to pathogenicity in chytrid fungi.
PLoS Pathog. 2011 Nov;7(11):e1002338. doi: 10.1371/journal.ppat.1002338
Joneson S, Stajich JE, Shiu SH, Rosenblum EB
Genomic transition to pathogenicity in chytrid fungi.
PLoS Pathog. 2011 Nov;7(11):e1002338. doi: 10.1371/journal.ppat.1002338
Funding
This project was not sequenced at the JGI.
