Status
The Zygnema circumcarinatum SAG 698-1b 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.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 71.00 |
| Sequencing read coverage depth | 466.14x |
| # of contigs | 534 |
| # of scaffolds | 90 |
| # of scaffolds >= 2Kbp | 90 |
| Scaffold N50 | 7 |
| Scaffold L50 (Mbp) | 3.96 |
| # of gaps | 444 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 8.66, 5.17, 5.00 |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 4914 | 4166 |
| transcript | 2436 | 2137 |
| exon | 291 | 150 |
| intron | 339 | 257 |
| description: | ||
| protein length (aa) | 519 | 417 |
| exons per gene | 8.36 | 7 |
| # of gene models | 10678 |
Collaborators
- Xuehuan Feng - University of Nebraska - Lincoln, USA
- Jinfang Zheng - University of Nebraska - Lincoln, USA
- Iker Irisarri - University of Göttingen, Germany
- Jan de Vries - University of Göttingen, Germany
- Yanbin Yin - University of Nebraska - Lincoln, USA
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
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
Links
- JGI Algae EcoGroup Portal
- JGI PhyloGroup Portals: Viridiplantae Streptophyta Zygnemophyceae
Funding
This project was not sequenced at the JGI.
