Status
[November 2018] The genome sequence and gene prediction of Lentinula edodes B17 were not determined by the JGI, but were downloaded from NCBI and the article, Park et al., 2017 on Aug 28, 2018, respectivley, and have been published (PubMed: 29845094,26924240). Please note that this copy of the genome is not maintained by the author and is therefore not automatically updated. This copy of the genome does not include the mitochondrial chromosome or genes. The JGI Annotation Pipeline was used to add additional functional annotation to the author's chromosomes and proteins.
Summary statistics for the Lentinula edodes B17 v1.0
release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 46.11 |
Sequencing read coverage depth | 61.0x |
# of contigs | 123 |
# of scaffolds | 31 |
# of scaffolds >= 2Kbp | 31 |
Scaffold N50 | 5 |
Scaffold L50 (Mbp) | 3.66 |
# of gaps | 92 |
% of scaffold length in gaps | 0.4% |
Three largest Scaffolds (Mbp) | 5.85, 5.33, 5.31 |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1354 | 1109 |
transcript | 1019 | 849 |
exon | 198 | 123 |
intron | 83 | 58 |
description: | ||
protein length (aa) | 340 | 283 |
exons per gene | 5.14 | 4 |
# of gene models | 14002 |
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Park SG, Yoo SI, Ryu DS, Lee H, Ahn YJ, Ryu H, Ko J, Hong CP
Long-read transcriptome data for improved gene prediction in Lentinula edodes.
Data Brief. 2017 Dec;15():454-458. doi: 10.1016/j.dib.2017.09.052
Shim D, Park SG, Kim K, Bae W, Lee GW, Ha BS, Ro HS, Kim M, Ryoo R, Rhee SK, Nou IS, Koo CD, Hong CP, Ryu H
Whole genome de novo sequencing and genome annotation of the world popular cultivated edible mushroom, Lentinula edodes.
J Biotechnol. 2016 Apr 10;223():24-5. doi: 10.1016/j.jbiotec.2016.02.032
Park SG, Yoo SI, Ryu DS, Lee H, Ahn YJ, Ryu H, Ko J, Hong CP
Long-read transcriptome data for improved gene prediction in Lentinula edodes.
Data Brief. 2017 Dec;15():454-458. doi: 10.1016/j.dib.2017.09.052
Shim D, Park SG, Kim K, Bae W, Lee GW, Ha BS, Ro HS, Kim M, Ryoo R, Rhee SK, Nou IS, Koo CD, Hong CP, Ryu H
Whole genome de novo sequencing and genome annotation of the world popular cultivated edible mushroom, Lentinula edodes.
J Biotechnol. 2016 Apr 10;223():24-5. doi: 10.1016/j.jbiotec.2016.02.032
Links
- JGI PhyloGroup Portals: Fungi Dikarya Basidiomycota Agaricomycotina Agaricomycetes Agaricales
Funding
This project was not sequenced at the JGI.