Info • Testicularia cyperi MCA 3645 v1.0

Status

[Jan 2015] The Testicularia cyperi MCA 3645 genome was sequenced using the Illumina platform and assembled together with AllPathsLG version R49403, (Gnerre et al., 2010). Mitochondrial genome was assembled separately and is available in the downloads section.

Summary statistics for the Testicularia cyperi MCA 3645 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 20.78
Sequencing read coverage depth 102.8x
# of contigs 182
# of scaffolds 95
# of scaffolds >= 2Kbp 90
Scaffold N50 6
Scaffold L50 (Mbp) 1.34
# of gaps 87
% of scaffold length in gaps 0.4%
Three largest Scaffolds (Mbp) 4.06, 2.00, 1.49


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests RNNotator_assembled_Illumina_ESTs 14840 14589 98.3%


Gene Models FilteredModels1
length (bp) of: average median
gene 2028 1676
transcript 1898 1558
exon 1103 650
intron 182 116
description:
protein length (aa) 538 418
exons per gene 1.72 1
# of gene models 7069


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

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.