Info • Violaceomyces palustris SA 807 v1.0

Status

[Jan 2015] The Ustilaginomycotina sp. SA 808 genome was sequenced using the Illumina platform and assembled together with Velvet and AllPathsLG version R46652, (Gnerre et al., 2010). Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Ustilaginomycotina sp. SA 807 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 27.32
Sequencing read coverage depth 140.8x
# of contigs 1563
# of scaffolds 1406
# of scaffolds >= 2Kbp 1236
Scaffold N50 241
Scaffold L50 (Mbp) 0.04
# of gaps 157
% of scaffold length in gaps 0.3%
Three largest Scaffolds (Mbp) 0.12, 0.11, 0.11


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests RNNotator_assembled_Illumina_ESTs 23273 22357 96.1%


Gene Models FilteredModels1
length (bp) of: average median
gene 2116 1831
transcript 1813 1469
exon 629 341
intron 163 138
description:
protein length (aa) 516 394
exons per gene 2.88 2
# of gene models 8060


Collaborators

Dr. Catherine Aime, Purdue University, IN

Dr. 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:

Kijpornyongpan T, Mondo SJ, Barry K, Sandor L, Lee J, Lipzen A, Pangilinan J, LaButti K, Hainaut M, Henrissat B, Grigoriev IV, Spatafora JW, Aime MC
Broad Genomic Sampling Reveals a Smut Pathogenic Ancestry of the Fungal Clade Ustilaginomycotina.
Mol Biol Evol. 2018 Aug 1;35(8):1840-1854. doi: 10.1093/molbev/msy072

Albu S, Toome M, Aime MC
Violaceomyces palustris gen. et sp. nov. and a new monotypic lineage, Violaceomycetales ord. nov. in Ustilaginomycetes.
Mycologia. 2015 Nov-Dec;107(6):1193-204. doi: 10.3852/14-260

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.