Info • Hygrophoropsis aurantiaca ATCC 28755 v1.0

Status

[May 2018] The Hygrophoropsis aurantiaca ATCC 28755 genome was sequenced with Illumina HiSeq-2500, assembled with AllPathsLG (v R52488), and annotated with the JGI Annotation Pipeline. Mitochondrial genome was assembled separately with SPAdes (v 3.11.1) and is available in the downloads section.

Summary statistics for the Hygrophoropsis aurantiaca v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 36.98
Sequencing read coverage depth 171.9x
# of contigs 2799
# of scaffolds 2305
# of scaffolds >= 2Kbp 1877
Scaffold N50 169
Scaffold L50 (Mbp) 0.05
# of gaps 494
% of scaffold length in gaps 0.5%
Three largest Scaffolds (Mbp) 0.43, 0.38, 0.33


ESTs Data set # sequences total # mapped to genome % mapped to genome
EstClusters ESTclusters 50123 46009 91.8%
Ests est.fasta 166221491 159649211 96.0%


Gene Models FilteredModels1
length (bp) of: average median
gene 1766 1533
transcript 1428 1227
exon 234 144
intron 68 57
description:
protein length (aa) 415 339
exons per gene 6.10 5
# of gene models 14285


Collaborators

Jon Magnuson, Pacific Northwest National Laboratory, USA

Joseph Spatafora, Oregon State University USA

Genome Reference(s)

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

Wu G, Miyauchi S, Morin E, Kuo A, Drula E, Varga T, Kohler A, Feng B, Cao Y, Lipzen A, Daum C, Hundley H, Pangilinan J, Johnson J, Barry K, LaButti K, Ng V, Ahrendt S, Min B, Choi IG, Park H, Plett JM, Magnuson J, Spatafora JW, Nagy LG, Henrissat B, Grigoriev IV, Yang ZL, Xu J, Martin FM
Evolutionary innovations through gain and loss of genes in the ectomycorrhizal Boletales.
New Phytol. 2022 Feb;233(3):1383-1400. doi: 10.1111/nph.17858

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.