Status
The genome sequence of Gigaspora rosea was not determined by the JGI.
The genome sequence was assembled with Allpath by Hélène San Clemente (Toulouse) and Claude Murat (Nancy).
The genome was provided by INRA on December 2015. The annotation was done by Emmanuelle Morin of INRA using the JGI Annotation Pipeline.
This copy of the genome does not include the mitochondrial chromosome or genes.
Summary statistics for the Gigaspora rosea v1.0 release
are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 567.95 |
| Sequencing read coverage depth | 50x |
| # of contigs | 28997 |
| # of scaffolds | 7526 |
| # of scaffolds >= 2Kbp | 5648 |
| Scaffold N50 | 734 |
| Scaffold L50 (Mbp) | 0.23 |
| # of gaps | 21471 |
| % of scaffold length in gaps | 7.9% |
| Three largest Scaffolds (Mbp) | 1.20, 1.14, 1.10 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 232327588 | 226017341 | 97.3% |
| Other | Gigro1_RNA_contigs | 86332 | 62141 | 72.0% |
| Gene Models | FilteredModels3 | |
| length (bp) of: | average | median |
| gene | 1473 | 1158 |
| transcript | 1029 | 810 |
| exon | 262 | 159 |
| intron | 154 | 87 |
| description: | ||
| protein length (aa) | 302 | 224 |
| exons per gene | 3.92 | 3 |
| # of gene models | 31291 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Morin E, Miyauchi S, San Clemente H, Chen ECH, Pelin A, de la Providencia I, Ndikumana S, Beaudet D, Hainaut M, Drula E, Kuo A, Tang N, Roy S, Viala J, Henrissat B, Grigoriev IV, Corradi N, Roux C, Martin FM
Comparative genomics of Rhizophagus irregularis, R. cerebriforme, R. diaphanus and Gigaspora rosea highlights specific genetic features in Glomeromycotina.
New Phytol. 2019 May;222(3):1584-1598. doi: 10.1111/nph.15687
Morin E, Miyauchi S, San Clemente H, Chen ECH, Pelin A, de la Providencia I, Ndikumana S, Beaudet D, Hainaut M, Drula E, Kuo A, Tang N, Roy S, Viala J, Henrissat B, Grigoriev IV, Corradi N, Roux C, Martin FM
Comparative genomics of Rhizophagus irregularis, R. cerebriforme, R. diaphanus and Gigaspora rosea highlights specific genetic features in Glomeromycotina.
New Phytol. 2019 May;222(3):1584-1598. doi: 10.1111/nph.15687
Funding
This project was not sequenced at the JGI.
