Status
The genome sequence and gene models of Raphidocelis subcapitata NIES-35 have not been determined by the JGI, but were downloaded from NCBI, on November 14, 2019. In order to allow comparative analyses with other genomes sequenced by the Joint Genome Institute, a copy of this genome is incorporated into PhycoCosm. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated.
Summary statistics for the Raphidocelis subcapitata
NIES-35 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 51.16 |
| Sequencing read coverage depth | 80x |
| # of contigs | 1480 |
| # of scaffolds | 300 |
| # of scaffolds >= 2Kbp | 300 |
| Scaffold N50 | 46 |
| Scaffold L50 (Mbp) | 0.34 |
| # of gaps | 1180 |
| % of scaffold length in gaps | 2.2% |
| Three largest Scaffolds (Mbp) | 1.44, 1.07, 1.03 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 2980 | 2360 |
| transcript | 1684 | 1335 |
| exon | 252 | 141 |
| intron | 230 | 205 |
| description: | ||
| protein length (aa) | 561 | 445 |
| exons per gene | 6.69 | 5 |
| # of gene models | 13383 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Suzuki S, Yamaguchi H, Nakajima N, Kawachi M
Raphidocelis subcapitata (=Pseudokirchneriella subcapitata) provides an insight into genome evolution and environmental adaptations in the Sphaeropleales.
Sci Rep. 2018 May 23;8(1):8058. doi: 10.1038/s41598-018-26331-6
Suzuki S, Yamaguchi H, Nakajima N, Kawachi M
Raphidocelis subcapitata (=Pseudokirchneriella subcapitata) provides an insight into genome evolution and environmental adaptations in the Sphaeropleales.
Sci Rep. 2018 May 23;8(1):8058. doi: 10.1038/s41598-018-26331-6
Links
- JGI Algae EcoGroup Portal
- JGI PhyloGroup Portals: Viridiplantae Chlorophyta Chlorophyceae
Funding
This project was not sequenced at the JGI.
