Info • Dunaliella salina CCAP19/18

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.

Summary statistics for the Dunaliella salina CCAP19/18 release are below.
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

Genome Reference(s)

Please cite the following publication(s) if you use the data from this genome in your research:

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

Funding

The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.