Status
The genome sequence and gene models of Galdieria yellowstonensis 108.79 E11 have not been determined by the JGI, but were downloaded from NCBI on February 7, 2024. All published models are available as ExternalModels. In order to ensure this genome is comparable to those sequenced and annotated by the JGI, we applied standard filters to ExternalModels to produce the initial GeneCatalog. A total of 521 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 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 the genes.
Genome Assembly | |
Genome Assembly size (Mbp) | 14.51 |
Sequencing read coverage depth | 285.0x |
# of contigs | 76 |
# of scaffolds | 76 |
# of scaffolds >= 2Kbp | 76 |
Scaffold N50 | 29 |
Scaffold L50 (Mbp) | 0.19 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 0.50, 0.36, 0.34 |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1481 | 1229 |
transcript | 1358 | 1125 |
exon | 422 | 205 |
intron | 57 | 54 |
description: | ||
protein length (aa) | 453 | 375 |
exons per gene | 3.22 | 2 |
# of gene models | 6501 |
Genome Reference(s)
Cho CH, Park SI, Huang TY, Lee Y, Ciniglia C, Yadavalli HC, Yang SW, Bhattacharya D, Yoon HS
Genome-wide signatures of adaptation to extreme environments in red algae.
Nat Commun. 2023 Jan 4;14(1):10. doi: 10.1038/s41467-022-35566-x
Links
- JGI EcoGroup Portals: Algae
- JGI PhyloGroup Portals: Archaeplastida Rhodophyta Bangiophyceae Galdieriales