Info • Jaminaea sp. MCA 5214 v1.0

Status

[Jan 2015] The Jaminaea rosea MCA 5214 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 Jaminaea rosea MCA 5214 v1.0 release are below.
Genome Assembly
Genome Assembly size (Mbp) 16.62
Sequencing read coverage depth 97.0x
# of contigs 28
# of scaffolds 21
# of scaffolds >= 2Kbp 21
Scaffold N50 6
Scaffold L50 (Mbp) 0.75
# of gaps 7
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 3.09, 1.50, 1.45


ESTs Data set # sequences total # mapped to genome % mapped to genome
Ests RNNotator_assembled_Illumina_ESTs 13497 13380 99.1%


Gene Models FilteredModels1
length (bp) of: average median
gene 1976 1665
transcript 1841 1521
exon 758 406
intron 97 80
description:
protein length (aa) 540 429
exons per gene 2.43 2
# of gene models 6858


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.