Info • Armillaria gallica 21-2 v1.0

Status

Assembly v1 (Dec 2014) is a minimal draft assembly of Illumina reads using Velvet and AllPathsLG.

Summary statistics for the Armillaria gallica 21-2 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 85.34
Sequencing read coverage depth 41.8x
# of contigs 1529
# of scaffolds 319
# of scaffolds >= 2Kbp 248
Scaffold N50 22
Scaffold L50 (Mbp) 1.04
# of gaps 1210
% of scaffold length in gaps 8.2%
Three largest Scaffolds (Mbp) 4.78, 3.86, 3.63


ESTs Data set # sequences total # mapped to genome % mapped to genome
Other JGI_RNA_contigs 41203 40703 98.8%


Gene Models FilteredModels1
length (bp) of: average median
gene 1459 1217
transcript 1171 955
exon 217 135
intron 68 55
description:
protein length (aa) 339 271
exons per gene 5.40 4
# of gene models 25704


Collaborators

James Anderson, University of Toronto

Joseph Spatafora, Oregon State University

Genome Reference(s)

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

Sipos G, Prasanna AN, Walter MC, O'Connor E, Bálint B, Krizsán K, Kiss B, Hess J, Varga T, Slot J, Riley R, Bóka B, Rigling D, Barry K, Lee J, Mihaltcheva S, LaButti K, Lipzen A, Waldron R, Moloney NM, Sperisen C, Kredics L, Vágvölgyi C, Patrignani A, Fitzpatrick D, Nagy I, Doyle S, Anderson JB, Grigoriev IV, Güldener U, Münsterkötter M, Nagy LG
Genome expansion and lineage-specific genetic innovations in the forest pathogenic fungi Armillaria.
Nat Ecol Evol. 2017 Dec;1(12):1931-1941. doi: 10.1038/s41559-017-0347-8

Funding

The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231.