Info • Lentinula afn. lateritia sp 3 TMI1502 v1.0

Status

[September 2018] The Lentinula afn. lateritia sp 3 TMI1502 genome was sequenced with Illumina technology, assembled sequentially with Velvet and AllPathsLG, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Lentinula afn. lateritia sp 3 TMI1502 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 38.88
Sequencing read coverage depth 150x
# of contigs 2479
# of scaffolds 1973
# of scaffolds >= 2Kbp 1610
Scaffold N50 242
Scaffold L50 (Mbp) 0.05
# of gaps 506
% of scaffold length in gaps 1.4%
Three largest Scaffolds (Mbp) 0.24, 0.23, 0.23


Gene Models FilteredModels1
length (bp) of: average median
gene 1644 1379
transcript 1293 1062
exon 213 133
intron 71 58
description:
protein length (aa) 431 354
exons per gene 6.07 5
# of gene models 12462


Collaborators

David Hibbett, Clark University

Genome Reference(s)

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

Sierra-Patev Sean, Min Byoungnam, Naranjo-Ortiz Miguel, Looney Brian, Konkel Zachary, Slot Jason C., Sakamoto Yuichi, Steenwyk Jacob L., Rokas Antonis, Carro Juan, Camarero Susana, Ferreira Patricia, Molpeceres Gonzalo, Ruiz-Dueñas Francisco J., Serrano Ana, Henrissat Bernard, Drula Elodie, Hughes Karen W., Mata Juan L., Ishikawa Noemia Kazue, Vargas-Isla Ruby, Ushijima Shuji, Smith Chris A., Donoghue John, Ahrendt Steven, Andreopoulos William, He Guifen, LaButti Kurt, Lipzen Anna, Ng Vivian, Riley Robert, Sandor Laura, Barry Kerrie, Martínez Angel T., Xiao Yang, Gibbons John G., Terashima Kazuhisa, Grigoriev Igor V., Hibbett David
A global phylogenomic analysis of the shiitake genus <i>Lentinula</i>
Proc. Natl. Acad. Sci. U.S.A.. 2023;120(10): doi: 10.1073/pnas.2214076120

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.