Info • Lactarius pseudohatsudake 88 v1.0

Status

[July 2018] The Lactarius pseudohatsudake genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. The transcriptome was sequenced with Illumina and assembled with Trinity. The mitochondrial genome was assemblied separately and is available on the Download page.

Summary statistics for the Lactarius pseudohatsudake 88 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 99.71
Sequencing read coverage depth 115.64x
# of contigs 1350
# of scaffolds 1350
# of scaffolds >= 2Kbp 1329
Scaffold N50 169
Scaffold L50 (Mbp) 0.15
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.64, 1.63, 1.13


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 115472 96642 83.7%
Ests est.fasta 228834488 225498172 98.5%


Gene Models FilteredModels1
length (bp) of: average median
gene 1651 1383
transcript 1316 1077
exon 236 153
intron 75 57
description:
protein length (aa) 388 305
exons per gene 5.58 4
# of gene models 20824


Genome Reference(s)

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

Lebreton A, Tang N, Kuo A, LaButti K, Andreopoulos W, Drula E, Miyauchi S, Barry K, Clum A, Lipzen A, Mousain D, Ng V, Wang R, Dai Y, Henrissat B, Grigoriev IV, Guerin-Laguette A, Yu F, Martin FM
Comparative genomics reveals a dynamic genome evolution in the ectomycorrhizal milk-cap (Lactarius) mushrooms.
New Phytol. 2022 Apr 5;():. doi: 10.1111/nph.18143

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.