Info • Suillus variegatus UH-Sva-Z1 v1.0

Status

[September 2018] (September 2018) The nuclear 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 sequenced with PacBio, assembled with Falcon, and made available on the Download page.

Summary statistics for the Suillus variegatus UH-Sva-Z1 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 64.86
Sequencing read coverage depth 240.13x
# of contigs 1270
# of scaffolds 1270
# of scaffolds >= 2Kbp 1248
Scaffold N50 99
Scaffold L50 (Mbp) 0.17
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.96, 0.82, 0.74


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 90478 76112 84.1%
Ests est.fasta 189512161 185503219 97.9%


Gene Models FilteredModels1
length (bp) of: average median
gene 1681 1426
transcript 1349 1133
exon 226 145
intron 69 55
description:
protein length (aa) 399 319
exons per gene 5.97 5
# of gene models 17072


Genome Reference(s)

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

Lofgren LA, Nguyen NH, Vilgalys R, Ruytinx J, Liao HL, Branco S, Kuo A, LaButti K, Lipzen A, Andreopoulos W, Pangilinan J, Riley R, Hundley H, Na H, Barry K, Grigoriev IV, Stajich JE, Kennedy PG
Comparative genomics reveals dynamic genome evolution in host specialist ectomycorrhizal fungi.
New Phytol. 2021 Apr;230(2):774-792. doi: 10.1111/nph.17160

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.