Info • Suillus occidentalis FC124 v1.0

Status

[August 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 assembled separately and is available on the Download page.

Summary statistics for the Suillus occidentalis FC124 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 57.96
Sequencing read coverage depth 306.36x
# of contigs 1584
# of scaffolds 1584
# of scaffolds >= 2Kbp 1542
Scaffold N50 152
Scaffold L50 (Mbp) 0.09
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 0.55, 0.54, 0.53


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 74344 63020 84.8%
Ests est.fasta 95669755 89294404 93.3%


Gene Models FilteredModels1
length (bp) of: average median
gene 1690 1441
transcript 1359 1139
exon 226 146
intron 68 55
description:
protein length (aa) 401 321
exons per gene 6.02 5
# of gene models 16030


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.