Status
June 2014. The Coniochaeta ligniaria genome was sequenced using Illumina technology and assembled with AllPathsLG version R47710 (Gnerre et al. 2010).
Summary statistics for the Coniochaeta ligniaria NRRL
30616 v1.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 42.38 |
| Sequencing read coverage depth | 94.4 |
| # of contigs | 230 |
| # of scaffolds | 135 |
| # of scaffolds >= 2Kbp | 118 |
| Scaffold N50 | 6 |
| Scaffold L50 (Mbp) | 3.22 |
| # of gaps | 95 |
| % of scaffold length in gaps | 0.1% |
| Three largest Scaffolds (Mbp) | 4.64, 4.17, 3.94 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Other | JGI_RNA_contigs | 34368 | 33551 | 97.6% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1717 | 1478 |
| transcript | 1549 | 1340 |
| exon | 584 | 359 |
| intron | 104 | 64 |
| description: | ||
| protein length (aa) | 444 | 366 |
| exons per gene | 2.65 | 2 |
| # of gene models | 13657 |
Collaborators
Nancy Nichols, USDA
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Jiménez DJ, Hector RE, Riley R, Lipzen A, Kuo RC, Amirebrahimi M, Barry KW, Grigoriev IV, van Elsas JD, Nichols NN
Draft Genome Sequence of Coniochaeta ligniaria NRRL 30616, a Lignocellulolytic Fungus for Bioabatement of Inhibitors in Plant Biomass Hydrolysates.
Genome Announc. 2017 Jan 26;5(4):. doi: 10.1128/genomeA.01476-16
Jiménez DJ, Hector RE, Riley R, Lipzen A, Kuo RC, Amirebrahimi M, Barry KW, Grigoriev IV, van Elsas JD, Nichols NN
Draft Genome Sequence of Coniochaeta ligniaria NRRL 30616, a Lignocellulolytic Fungus for Bioabatement of Inhibitors in Plant Biomass Hydrolysates.
Genome Announc. 2017 Jan 26;5(4):. doi: 10.1128/genomeA.01476-16
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.
