Status
[August 2015] The Meredithblackwellia eburnea MCA 4105 genome was sequenced using the Illumina platform and assembled together with AllPathsLG version R47710, (Gnerre et al., 2010). Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Meredithblackwellia eburnea MCA
4105 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 30.68 |
| Sequencing read coverage depth | 112.0x |
| # of contigs | 201 |
| # of scaffolds | 52 |
| # of scaffolds >= 2Kbp | 45 |
| Scaffold N50 | 7 |
| Scaffold L50 (Mbp) | 1.33 |
| # of gaps | 149 |
| % of scaffold length in gaps | 0.4% |
| Three largest Scaffolds (Mbp) | 3.96, 2.59, 2.52 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | RNNotator_assembled_Illumina_ESTs | 23249 | 22817 | 98.1% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2161 | 1868 |
| transcript | 1603 | 1361 |
| exon | 220 | 135 |
| intron | 91 | 76 |
| description: | ||
| protein length (aa) | 469 | 387 |
| exons per gene | 7.28 | 6 |
| # of gene models | 11135 |
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:
Mondo SJ, He G, Sharma A, Ciobanu D, Riley R, Andreopoulos WB, Lipzen A, Kuo A, LaButti K, Pangilinan J, Salamov A, Salamon H, Shu L, Gladden J, Magnuson J, Aime MC, O'Malley R, Grigoriev IV
Consecutive low-frequency shifts in A/T content denote nucleosome positions across microeukaryotes.
iScience. 2025 May 16;28(5):112472. doi: 10.1016/j.isci.2025.112472
Mondo SJ, He G, Sharma A, Ciobanu D, Riley R, Andreopoulos WB, Lipzen A, Kuo A, LaButti K, Pangilinan J, Salamov A, Salamon H, Shu L, Gladden J, Magnuson J, Aime MC, O'Malley R, Grigoriev IV
Consecutive low-frequency shifts in A/T content denote nucleosome positions across microeukaryotes.
iScience. 2025 May 16;28(5):112472. doi: 10.1016/j.isci.2025.112472
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.
