Info • Pholiota alnicola AH 47727 v1.0

Status

[September 2016] The Pholiota alnicola AH 47727 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation pipeline.

Summary statistics for the Pholiota alnicola v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 75.01
Sequencing read coverage depth 128.9x
# of contigs 976
# of scaffolds 976
# of scaffolds >= 2Kbp 960
Scaffold N50 93
Scaffold L50 (Mbp) 0.21
# of gaps 0
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 1.58, 1.42, 1.37


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 89455 85834 96.0%
Ests est.fasta 261266312 256816828 98.3%


Gene Models FilteredModels1
length (bp) of: average median
gene 1662 1387
transcript 1325 1092
exon 229 143
intron 72 59
description:
protein length (aa) 389 310
exons per gene 5.79 4
# of gene models 18795


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.