Info • Zygnema circumcarinatum UTEX 1559

Status

The Zygnema circumcarinatum UTEX 1559 genome assembly and gene models have not been determined by the JGI, but were downloaded from https://bcb.unl.edu/Zygnema_4genomes/ (Yanbin Yin Lab, University of Nebraska - Lincoln) on January 24, 2023. Please note that this copy of the genome is not maintained by the Yin Lab 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.

Please note: the full set of published MAKER-P models are included as the ExternalsModels gene track. Prior v1 gene models were mapped to this v2 assembly. The v1 assembly and annotation are available separately in the downloads section.

Genome Assembly
Genome Assembly size (Mbp) 71.31
Sequencing read coverage depth 1042.23x
# of contigs 2302
# of scaffolds 614
# of scaffolds >= 2Kbp 354
Scaffold N50 7
Scaffold L50 (Mbp) 3.97
# of gaps 1688
% of scaffold length in gaps 3.0%
Three largest Scaffolds (Mbp) 9.05, 5.27, 5.25


Gene Models FilteredModels1
length (bp) of: average median
gene 4315 3408
transcript 1930 1585
exon 244 141
intron 348 259
description:
protein length (aa) 525 404
exons per gene 7.90 6
# of gene models 12038


Genome Reference(s)

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

Feng X, Zheng J, Irisarri I, Yu H, Zheng B, Ali Z, de Vries S, Keller J, Fürst-Jansen JMR, Dadras A, Zegers JMS, Rieseberg TP, Dhabalia Ashok A, Darienko T, Bierenbroodspot MJ, Gramzow L, Petroll R, Haas FB, Fernandez-Pozo N, Nousias O, Li T, Fitzek E, Grayburn WS, Rittmeier N, Permann C, Rümpler F, Archibald JM, Theißen G, Mower JP, Lorenz M, Buschmann H, von Schwartzenberg K, Boston L, Hayes RD, Daum C, Barry K, Grigoriev IV, Wang X, Li FW, Rensing SA, Ben Ari J, Keren N, Mosquna A, Holzinger A, Delaux PM, Zhang C, Huang J, Mutwil M, de Vries J, Yin Y
Genomes of multicellular algal sisters to land plants illuminate signaling network evolution.
Nat Genet. 2024 May;56(5):1018-1031. doi: 10.1038/s41588-024-01737-3

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.