Info • Desmodesmus armatus isolate SE107 v1.0

Status

[May 2022] The genome and transcriptome sequences of Desmodesmus armatus SE107 were not determined by the Joint Genome Institute (JGI). The genome was sequenced with Pacbio and assembled with HGAP at the National Renewable Energy Lab (NREL). The transcriptome was provided by Sapphire Energy, and then assembled with Trinity by JGI. Subsequently, the JGI Annotation Pipeline was used to generate structural and functional annotations.

The genome assembly work was funded by the U.S. Department of Energy Office of Energy Efficiency and Renewable Energy and by the Rewiring Algal Carbon Energetics for Renewables (RACER) consortium, and by the National Renewable Energy Laboratory Research Data Initiative.

Genome Assembly
Genome Assembly size (Mbp) 116.30
Sequencing read coverage depth 85.0x
# of contigs 905
# of scaffolds 905
# of scaffolds >= 2Kbp 901
Scaffold N50 101
Scaffold L50 (Mbp) 0.34
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.61, 1.61, 1.48


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests est.fasta 319251230 293454463 91.9%
Other Sapphire_RNA_contigs 196426 110487 56.2%
  • Please note: Using BLAST, unmapped RNA contigs were found to hit Brachionus plicatilis, Bos taurus, and Homo sapiens suggesting that the RNA library was contaminated.


Gene Models FilteredModels1
length (bp) of: average median
gene 3939 3061
transcript 1762 1446
exon 274 153
intron 404 311
description:
protein length (aa) 417 326
exons per gene 6.42 5
# of gene models 17675


Collaborators

Genome Reference(s)

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

Knoshaug Eric P., Nag Ambarish, Astling David P., Douchi Damien, Laurens Lieve M. L.
Draft Genome Sequence of the Biofuel-Relevant Microalga Desmodesmus armatus
Microbiol Resour Announc. 2020;9(6): doi: 10.1128/mra.00896-19

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.