Status
The Limnomonas spitsbergensis CCryo_02-99_CH genome assembly and gene models have not been determined by the JGI, but were downloaded from Hulatt et al. 2024 supplemental materials on April 29, 2024. All published models are available as ExternalModels. In order to ensure this genome is comparable to those sequenced annotated by the JGI , we applied standard filters to ExternalModels to produce the initial GeneCatalog. A total of 3,314 external models were excluded based on one of the following classifications: 1) association with repetitive elements, 2) pseudogenes with internal stop codons, 3) alternative isoforms or overlapping transcript models, 4) alleles on secondary scaffolds, and 5) short models lacking functional annotation. Please note that this copy of the genome is not maintained by NCBI and is therefore not automatically updated. In order to allow comparative analyses with other algal genomes sequenced by the JGI, a copy of this genome is incorporated into PhycoCosm. The JGI Annotation Pipeline was used to add functional annotation to this genome.
Genome Assembly | |
Genome Assembly size (Mbp) | 260.25 |
Sequencing read coverage depth | NA |
# of contigs | 124 |
# of scaffolds | 124 |
# of scaffolds >= 2Kbp | 124 |
Scaffold N50 | 21 |
Scaffold L50 (Mbp) | 3.93 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 10.74, 9.59, 9.52 |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 6991 | 4364 |
transcript | 1846 | 1578 |
exon | 239 | 136 |
intron | 769 | 515 |
description: | ||
protein length (aa) | 524 | 393 |
exons per gene | 7.71 | 6 |
# of gene models | 14963 |
Genome Reference(s)
Hulatt CJ, Suzuki H, Détain A, Wijffels RH, Leya T, Posewitz MC
The genome of the Arctic snow-alga Limnomonas spitsbergensis (Chlamydomonadales).
G3 (Bethesda). 2024 Apr 25;():. doi: 10.1093/g3journal/jkae086
Links
- JGI EcoGroup Portals: Algae Psychrophilic Algae Artic Algae
- JGI PhyloGroup Portals: Viridiplantae Chlorophyta Chlorophyceae Chlamydomonadales