Status
The genome sequence and gene models of Dunaliella salina CCAP19/18 were downloaded from Phytozome, on May 3, 2018. Please note that this copy of the genome is not maintained by Phytozome and is therefore not automatically updated. The latest data is available at Phytozome.
In order to allow comparative analyses with other algal genomes sequenced by the JGI, a copy of this genome is incorporated into PhycoCosm. We applied filters to remove if present: 1) transposable elements, 2) pseudogenes, 3) alternative transcripts and overlapping models, and 4) unsupported short models. This resulted in removal of 4,625 models from D. salina and generation of the FilteredModels gene track, which is available in the downloads section. All published models are available in the ExternalModels track, which is shown by default. JGI tools were used to automatically annotate predicted proteins.
Genome Assembly | |
Genome Assembly size (Mbp) | 343.70 |
Sequencing read coverage depth | |
# of contigs | 53869 |
# of scaffolds | 5512 |
# of scaffolds >= 2Kbp | 3903 |
Scaffold N50 | 310 |
Scaffold L50 (Mbp) | 0.35 |
# of gaps | 48357 |
% of scaffold length in gaps | 18.3% |
Three largest Scaffolds (Mbp) | 1.55, 1.46, 1.40 |
Gene Models | ExternalModels | |
length (bp) of: | average | median |
gene | 11502 | 7747 |
transcript | 1768 | 1389 |
exon | 227 | 124 |
intron | 1436 | 941 |
description: | ||
protein length (aa) | 421 | 288 |
exons per gene | 7.79 | 6 |
# of gene models | 18801 |
Collaborators
- Jüergen Polle at Brooklyn College of CUNY
- John Cushman at University of Nevada, Reno
- Jon Magnuson at Pacific Northwest National Laboratory
Genome Reference(s)
Polle Juergen E. W., Barry Kerrie, Cushman John, Schmutz Jeremy, Tran Duc, Hathwaik Leyla T., Yim Won C., Jenkins Jerry, McKie-Krisberg Zaid, Prochnik Simon, Lindquist Erika, Dockter Rhyan B., Adam Catherine, Molina Henrik, Bunkenborg Jakob, Jin EonSeon, Buchheim Mark, Magnuson Jon
Draft Nuclear Genome Sequence of the Halophilic and Beta-Carotene-Accumulating Green Alga <i>Dunaliella salina</i> Strain CCAP19/18
Genome Announc. 2017;5(43): doi: 10.1128/genomeA.01105-17
Polle Jürgen E.W., Calhoun Sara, McKie-Krisberg Zaid, Prochnik Simon, Neofotis Peter, Yim Won C., Hathwaik Leyla T., Jenkins Jerry, Molina Henrik, Bunkenborg Jakob, Grigoriev Igor V., Barry Kerrie, Schmutz Jeremy, Jin EonSeon, Cushman John C., Magnusson Jon K.
Genomic adaptations of the green alga Dunaliella salina to life under high salinity
Algal Research. 2020;50:101990. doi: 10.1016/j.algal.2020.101990
Links
- JGI EcoGroup Portals: Algae
- JGI PhyloGroup Portals: Archaeplastida Viridiplantae Chlorophyta Chlorophyceae
- Phytozome Dunaliella salina portal