Status
The genome sequence and gene models provided here were not determined by the Joint Genome Institute (JGI), but were downloaded from NCBI on September 21st, 2021. In order to allow comparative analyses with other fungal genomes sequenced by the JGI, a copy of this genome is incorporated into Mycocosm. The genome sequence of Gigaspora margarita BEG34 was assembled with ALLPATHS-LG v.3 by Stefano Ghignone (IPSP-CNR). The gene space annotation was done by Francesco Venice of UNITO using BRAKER2 pipeline.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 773.10 |
| Sequencing read coverage depth | |
| # of contigs | 46230 |
| # of scaffolds | 6489 |
| # of scaffolds >= 2Kbp | 5037 |
| Scaffold N50 | 743 |
| Scaffold L50 (Mbp) | 0.33 |
| # of gaps | 39741 |
| % of scaffold length in gaps | 7.3% |
| Three largest Scaffolds (Mbp) | 1.77, 1.60, 1.41 |
| Gene Models | ExternalModels | |
| length (bp) of: | average | median |
| gene | 1475 | 1119 |
| transcript | 1043 | 768 |
| exon | 238 | 145 |
| intron | 129 | 86 |
| description: | ||
| protein length (aa) | 348 | 256 |
| exons per gene | 4.39 | 3 |
| # of gene models | 29544 |
Collaborators
- Dr. Paola Bonfante, University of Torino, Italy
- Dr. Stefano Ghignone, National Research Council of Italy, Italy
- Dr. Franceso Venice, University of Torino, Italy
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Venice F, Ghignone S, Salvioli di Fossalunga A, Amselem J, Novero M, Xianan X, Sędzielewska Toro K, Morin E, Lipzen A, Grigoriev IV, Henrissat B, Martin FM, Bonfante P
At the nexus of three kingdoms: the genome of the mycorrhizal fungus Gigaspora margarita provides insights into plant, endobacterial and fungal interactions.
Environ Microbiol. 2020 Jan;22(1):122-141. doi: 10.1111/1462-2920.14827
Venice F, Ghignone S, Salvioli di Fossalunga A, Amselem J, Novero M, Xianan X, Sędzielewska Toro K, Morin E, Lipzen A, Grigoriev IV, Henrissat B, Martin FM, Bonfante P
At the nexus of three kingdoms: the genome of the mycorrhizal fungus Gigaspora margarita provides insights into plant, endobacterial and fungal interactions.
Environ Microbiol. 2020 Jan;22(1):122-141. doi: 10.1111/1462-2920.14827
Links
- JGI PhyloGroup Portals: Fungi Mucoromycota Glomeromycotina
- Arbuscular mycorrhizal fungi JGI EcoGroup
- Ca. Glomeribacter gigasporarum endosymbiont assembly, available through NCBI
Funding
This project was not sequenced at the JGI.
