Info • Jimgerdemannia lactiflua OSC166217

Status

The genome of Jimgerdemannia lactiflua was sequenced, assembled and annotated by Ying Chang at Oregon State University. JGI tools were used to automatically annotate predicted proteins. The material used for sequencing of Jimgerdemannia lactiflua resulted in a metagenome. Therefore, assembly was done using Spades v3.12.0 and VizBin (Laczny et al., 2015) was used to separate individual genomes. Maker was then used to annotate the extracted J. lactiflua OSC166217 genome. Please note that Ying does not maintain this copy of the genome and therefore it is not automatically updated.

Summary statistics for the Jimgerdemannia lactiflua OSC166217 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 179.67
Sequencing read coverage depth
# of contigs 45525
# of scaffolds 45525
# of scaffolds >= 2Kbp 29433
Scaffold N50 9644
Scaffold L50 (Mbp) 0.01
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.05, 0.04, 0.04


Gene Models ExternalModels
length (bp) of: average median
gene 1130 891
transcript 922 705
exon 317 198
intron 111 93
description:
protein length (aa) 306 234
exons per gene 2.91 2
# of gene models 12651


Collaborators

Ying Chang, Oregon State University, USA

Joseph Spatafora, Oregon State University, USA

Greg Bonito, Michigan State University, USA

Alessandro Desirò, Michigan State University, USA

Genome Reference(s)

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

Chang Y, Desirò A, Na H, Sandor L, Lipzen A, Clum A, Barry K, Grigoriev IV, Martin FM, Stajich JE, Smith ME, Bonito G, Spatafora JW
Phylogenomics of Endogonaceae and evolution of mycorrhizas within Mucoromycota.
New Phytol. 2019 Apr;222(1):511-525. doi: 10.1111/nph.15613

Funding

This project was not sequenced at the JGI.