Info • Rhizophagus irregularis DAOM 197198 v1.0
Please note that this organism is for archival use only. Please see the current Rhizophagus irregularis DAOM197198 v2.0 site for the latest data and information.

Status

The genome sequence of Rhizophagus irregularis DAOM 197198 was not determined by the JGI.

 

The genome sequence was assembled with ALLPATHS-LG by Claude Murat.

The genome was provided by INRA on August 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 Rhizophagus irregularis v2.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 136.81
Sequencing read coverage depth 50x
# of contigs 5810
# of scaffolds 1123
# of scaffolds >= 2Kbp 960
Scaffold N50 129
Scaffold L50 (Mbp) 0.34
# of gaps 4687
% of scaffold length in gaps 5.1%
Three largest Scaffolds (Mbp) 1.38, 1.13, 1.08


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests est.fasta 439841187 432649218 98.4%
Ests Sanger_ESTs 40364 33964 84.1%
Ests 454_ESTs 365294 336951 92.2%
Other Solexa_RNA_contigs 26503 23889 90.1%
Other AMFEST1_RNA222324_contigs 52951 47074 88.9%
Other AMFEST1_RNA161718_contigs 56233 49756 88.5%
Other 454_and_Sanger_EST_contigs 25906 23041 88.9%
Other AMFEST1_RNA123_contigs 53247 47335 88.9%
Other AMFEST1_RNA101112_contigs 57529 51012 88.7%
Other AMFEST1_RNA456_contigs 52793 46882 88.8%
Other AMFEST1_RNA192021_contigs 56040 49480 88.3%
Other AMFEST1_RNA616263_contigs 66790 52317 78.3%
Other Rhiir2_unigenes 61428 52312 85.2%
Other AMFEST1_RNA131415_contigs 58344 51707 88.6%
Other AMFEST1_RNA789_contigs 58332 51613 88.5%


Gene Models FilteredModels2
length (bp) of: average median
gene 1494 1231
transcript 1139 927
exon 291 169
intron 123 81
description:
protein length (aa) 327 249
exons per gene 3.92 3
# of gene models 26183


Genome Reference(s)

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

Chen ECH, Morin E, Beaudet D, Noel J, Yildirir G, Ndikumana S, Charron P, St-Onge C, Giorgi J, Krüger M, Marton T, Ropars J, Grigoriev IV, Hainaut M, Henrissat B, Roux C, Martin F, Corradi N
High intraspecific genome diversity in the model arbuscular mycorrhizal symbiont Rhizophagus irregularis.
New Phytol. 2018 Dec;220(4):1161-1171. doi: 10.1111/nph.14989

Funding

This project was not sequenced at the JGI.