Status
The genome sequence and gene prediction of Mitosporidium
daphniae UPG3 have not been determined by the Joint Genome
Institute (JGI), but were downloaded from NCBI
on May 28, 2018. In order to allow comparative analyses with other
fungal genomes sequenced by the JGI, a copy of this genome is
incorporated into Mycocosm. Please
note that this copy of the genome is not maintained by NCBI and is
therefore not automatically updated.
JGI tools were used to automatically annotate predicted proteins.
These tools converted all IUPAC-recognized ambiguous bases to Ns
during the annotation process. Therefore the assembly and protein
set available on the Download page is slightly modified from those
which are available from NCBI.
Summary statistics for the Mitosporidium daphniae UGP3
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 5.64 |
| Sequencing read coverage depth | |
| # of contigs | 612 |
| # of scaffolds | 612 |
| # of scaffolds >= 2Kbp | 278 |
| Scaffold N50 | 51 |
| Scaffold L50 (Mbp) | 0.03 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 0.12, 0.10, 0.10 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1252 | 987 |
| transcript | 1151 | 888 |
| exon | 508 | 299 |
| intron | 82 | 43 |
| description: | ||
| protein length (aa) | 383 | 296 |
| exons per gene | 2.26 | 2 |
| # of gene models | 3330 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Haag KL, James TY, Pombert JF, Larsson R, Schaer TM, Refardt D, Ebert D
Evolution of a morphological novelty occurred before genome compaction in a lineage of extreme parasites.
Proc Natl Acad Sci U S A. 2014 Oct 28;111(43):15480-5. doi: 10.1073/pnas.1410442111
Haag KL, James TY, Pombert JF, Larsson R, Schaer TM, Refardt D, Ebert D
Evolution of a morphological novelty occurred before genome compaction in a lineage of extreme parasites.
Proc Natl Acad Sci U S A. 2014 Oct 28;111(43):15480-5. doi: 10.1073/pnas.1410442111
Links
JGI Phylgroup portals:
Funding
This project was not sequenced at the JGI.
