Status
[March 2015] The Acaromyces ingoldii MCA 4198 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 Acaromyces ingoldii MCA 4198
v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 19.33 |
| Sequencing read coverage depth | 91.4x |
| # of contigs | 50 |
| # of scaffolds | 28 |
| # of scaffolds >= 2Kbp | 24 |
| Scaffold N50 | 3 |
| Scaffold L50 (Mbp) | 3.16 |
| # of gaps | 22 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 4.52, 3.75, 3.16 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator_assembled_Illumina_ESTs | 16036 | 15841 | 98.8% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1942 | 1657 |
| transcript | 1784 | 1483 |
| exon | 589 | 325 |
| intron | 80 | 68 |
| description: | ||
| protein length (aa) | 526 | 423 |
| exons per gene | 3.03 | 3 |
| # of gene models | 8025 |
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
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.
