Status
[November 2017] The Mycena crocata CBHHK184 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Mycena crocata CBHHK184 v1.0
release are below.
Genome Assembly | |
Genome Assembly size (Mbp) | 93.99 |
Sequencing read coverage depth | 42.29x |
# of contigs | 325 |
# of scaffolds | 325 |
# of scaffolds >= 2Kbp | 324 |
Scaffold N50 | 58 |
Scaffold L50 (Mbp) | 0.50 |
# of gaps | 0 |
% of scaffold length in gaps | 0.0% |
Three largest Scaffolds (Mbp) | 2.89, 1.60, 1.53 |
ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
EstClusters | ESTclusters | 87501 | 85510 | 97.7% |
Ests | est.fasta | 87722254 | 87038417 | 99.2% |
Gene Models | FilteredModels1 | |
length (bp) of: | average | median |
gene | 1695 | 1436 |
transcript | 1333 | 1132 |
exon | 222 | 138 |
intron | 74 | 55 |
description: | ||
protein length (aa) | 401 | 328 |
exons per gene | 6.01 | 5 |
# of gene models | 30221 |
Collaborators
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Harder CB, Miyauchi S, Virágh M, Kuo A, Thoen E, Andreopoulos B, Lu D, Skrede I, Drula E, Henrissat B, Morin E, Kohler A, Barry K, LaButti K, Salamov A, Lipzen A, Merényi Z, Hegedüs B, Baldrian P, Stursova M, Weitz H, Taylor A, Koriabine M, Savage E, Grigoriev IV, Nagy LG, Martin F, Kauserud H
Extreme overall mushroom genome expansion in Mycena s.s. irrespective of plant hosts or substrate specializations.
Cell Genom. 2024 Jun 19;():100586. doi: 10.1016/j.xgen.2024.100586
Harder CB, Miyauchi S, Virágh M, Kuo A, Thoen E, Andreopoulos B, Lu D, Skrede I, Drula E, Henrissat B, Morin E, Kohler A, Barry K, LaButti K, Salamov A, Lipzen A, Merényi Z, Hegedüs B, Baldrian P, Stursova M, Weitz H, Taylor A, Koriabine M, Savage E, Grigoriev IV, Nagy LG, Martin F, Kauserud H
Extreme overall mushroom genome expansion in Mycena s.s. irrespective of plant hosts or substrate specializations.
Cell Genom. 2024 Jun 19;():100586. doi: 10.1016/j.xgen.2024.100586
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.