Status
The Geosiphon pyriformis genome sequence and gene
models were not determined by the Joint Genome Institute (JGI), but
were provided by Nicolas Corradi and Mathu Malar C at the
University of Ottawa. Please note that this copy of the genome is
not maintained by the original authors and is therefore not
automatically updated. In order to allow comparative analyses with
other fungal genomes sequenced by the JGI, a copy of this genome is
incorporated into MycoCosm. The JGI Annotation Pipeline was used to
add functional annotation to this genome.
In order to ensure this genome is comparable to those sequenced by
the JGI, we applied filters to remove if present: 1) transposable
elements, 2) pseudogenes, 3) alternative transcripts and
overlapping models, 4) alleles on secondary scaffolds and 5)
unsupported short models. This resulted in the removal of 11,987
models from G. pyriformis and the generation of the
FilteredModels1 gene track. All provided models are available in
the ExternalModels track.
Genome Assembly | |
Genome Assembly size (Mbp) | 128.32 |
Sequencing read coverage depth | |
# of contigs | 2775 |
# of scaffolds | 792 |
# of scaffolds >= 2Kbp | 792 |
Scaffold N50 | 57 |
Scaffold L50 (Mbp) | 0.70 |
# of gaps | 1983 |
% of scaffold length in gaps | 2.0% |
Three largest Scaffolds (Mbp) | 2.73, 2.36, 2.34 |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1863 | 1451 |
transcript | 1352 | 1068 |
exon | 250 | 148 |
intron | 118 | 82 |
description: | ||
protein length (aa) | 451 | 356 |
exons per gene | 5.41 | 4 |
# of gene models | 11949 |
Genome Reference(s)
Malar C M, Krüger M, Krüger C, Wang Y, Stajich JE, Keller J, Chen ECH, Yildirir G, Villeneuve-Laroche M, Roux C, Delaux PM, Corradi N
The genome of Geosiphon pyriformis reveals ancestral traits linked to the emergence of the arbuscular mycorrhizal symbiosis.
Curr Biol. 2021 Apr 12;31(7):1570-1577.e4. doi: 10.1016/j.cub.2021.01.058
Links
- JGI PhyloGroup Portals: Fungi Mucoromycota Glomeromycotina