Info • Armillaria solidipes 28-4 v1.0

Status

(Oct 2015) The Armillaria solidipes 28-4 genome was sequenced using the Illumina platform and assembled with AllPathsLG version R49403.

Summary statistics for the Armillaria solidipes 28-4 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 58.01
Sequencing read coverage depth 67.6x
# of contigs 693
# of scaffolds 229
# of scaffolds >= 2Kbp 198
Scaffold N50 21
Scaffold L50 (Mbp) 0.72
# of gaps 464
% of scaffold length in gaps 3.9%
Three largest Scaffolds (Mbp) 3.40, 3.38, 2.25


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 45396 44778 98.6%


Gene Models FilteredModels1
length (bp) of: average median
gene 1580 1354
transcript 1290 1095
exon 227 140
intron 64 55
description:
protein length (aa) 371 308
exons per gene 5.69 4
# of gene models 20811


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.