Status
The Prasinoderma coloniale CCMP1413 genome assembly and gene models have not been determined by the JGI, but were downloaded from the CNGB Nucleotide Sequence Archive (accession no. CNP0000924) on July 20, 2020. Please note that this copy of the genome is not maintained by CNGB 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. The mitochondrial and chloroplast assemblies, identified from fasta annotation, were separated from the nuclear genome and are available from the download section.
Summary statistics for the Prasinoderma coloniale CCMP1413
release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 25.32 |
Sequencing read coverage depth | |
# of contigs | 22 |
# of scaffolds | 22 |
# of scaffolds >= 2Kbp | 22 |
Scaffold N50 | 7 |
Scaffold L50 (Mbp) | 1.23 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 3.60, 2.45, 2.23 |
Gene Models | ExternalModels | |
length (bp) of: | average | median |
gene | 1900 | 1555 |
transcript | 1615 | 1290 |
exon | 714 | 387 |
intron | 228 | 164 |
description: | ||
protein length (aa) | 491 | 391 |
exons per gene | 2.26 | 2 |
# of gene models | 7139 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Li L, Wang S, Wang H, Sahu SK, Marin B, Li H, Xu Y, Liang H, Li Z, Cheng S, Reder T, Çebi Z, Wittek S, Petersen M, Melkonian B, Du H, Yang H, Wang J, Wong GK, Xu X, Liu X, Van de Peer Y, Melkonian M, Liu H
The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants.
Nat Ecol Evol. 2020 Sep;4(9):1220-1231. doi: 10.1038/s41559-020-1221-7
Li L, Wang S, Wang H, Sahu SK, Marin B, Li H, Xu Y, Liang H, Li Z, Cheng S, Reder T, Çebi Z, Wittek S, Petersen M, Melkonian B, Du H, Yang H, Wang J, Wong GK, Xu X, Liu X, Van de Peer Y, Melkonian M, Liu H
The genome of Prasinoderma coloniale unveils the existence of a third phylum within green plants.
Nat Ecol Evol. 2020 Sep;4(9):1220-1231. doi: 10.1038/s41559-020-1221-7
Links
- JGI Algae EcoGroup Portal
- JGI PhyloGroup Portals: Archaeplastida Viridiplantae Chlorophyta Palmophyllophyceae
Funding
This project was not sequenced at the JGI.