Info • Suillus ampliporus FC55 v1.0

Status

[April 2018] (April 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 and assembled with Falcon.

Summary statistics for the Suillus ampliporus FC55 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 58.33
Sequencing read coverage depth 186.36x
# of contigs 1601
# of scaffolds 1601
# of scaffolds >= 2Kbp 1507
Scaffold N50 114
Scaffold L50 (Mbp) 0.12
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.03, 0.96, 0.86


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 92313 76420 82.8%
Ests est.fasta 100500298 96512863 96.0%


Gene Models FilteredModels1
length (bp) of: average median
gene 1685 1447
transcript 1358 1144
exon 228 145
intron 68 55
description:
protein length (aa) 396 318
exons per gene 5.95 5
# of gene models 16527


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.