Info • Clitocybe gibba IJFM A808 v1.0

Status

[December 2016] The Clitocybe gibba IJFM A808 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 Clitocybe gibba v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 65.97
Sequencing read coverage depth 128.02x
# of contigs 1258
# of scaffolds 1258
# of scaffolds >= 2Kbp 1228
Scaffold N50 82
Scaffold L50 (Mbp) 0.18
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 2.65, 1.84, 1.83


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 109055 98534 90.4%
Ests est.fasta 138308700 135526903 98.0%


Gene Models FilteredModels1
length (bp) of: average median
gene 1568 1321
transcript 1239 1030
exon 205 133
intron 67 54
description:
protein length (aa) 359 288
exons per gene 6.04 5
# of gene models 19049


Collaborators

José María Barrasa, Universidad de Alcalá, Spain

Genome Reference(s)

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

Ruiz-Dueñas FJ, Barrasa JM, Sánchez-García M, Camarero S, Miyauchi S, Serrano A, Linde D, Babiker R, Drula E, Ayuso-Fernández I, Pacheco R, Padilla G, Ferreira P, Barriuso J, Kellner H, Castanera R, Alfaro M, Ramírez L, Pisabarro AG, Riley R, Kuo A, Andreopoulos W, LaButti K, Pangilinan J, Tritt A, Lipzen A, He G, Yan M, Ng V, Grigoriev IV, Cullen D, Martin F, Rosso MN, Henrissat B, Hibbett D, Martínez AT
Genomic Analysis Enlightens Agaricales Lifestyle Evolution and Increasing Peroxidase Diversity.
Mol Biol Evol. 2021 Apr 13;38(4):1428-1446. doi: 10.1093/molbev/msaa301

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.