Status
[January 2018] The Piptocephalis cylindrospora RSA2659 coassembly was constructed from eight 1-cell and one 100-cell Illumina libraries, assembled together with Spades, and annotated with the JGI Annotation pipeline.
Summary statistics for the Piptocephalis cylindrospora RSA
2659 single-cell v3.0 release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 10.75 |
| Sequencing read coverage depth | 1.0x |
| # of contigs | 1383 |
| # of scaffolds | 1381 |
| # of scaffolds >= 2Kbp | 1381 |
| Scaffold N50 | 282 |
| Scaffold L50 (Mbp) | 0.01 |
| # of gaps | 2 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 0.06, 0.05, 0.04 |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1336 | 1070 |
| transcript | 1122 | 897 |
| exon | 373 | 195 |
| intron | 108 | 82 |
| description: | ||
| protein length (aa) | 374 | 299 |
| exons per gene | 3.01 | 2 |
| # of gene models | 4301 |
Collaborators
- Dr. Timothy Y. James, University of Michigan, USA
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Ahrendt SR, Quandt CA, Ciobanu D, Clum A, Salamov A, Andreopoulos B, Cheng JF, Woyke T, Pelin A, Henrissat B, Reynolds NK, Benny GL, Smith ME, James TY, Grigoriev IV
Leveraging single-cell genomics to expand the fungal tree of life.
Nat Microbiol. 2018 Dec;3(12):1417-1428. doi: 10.1038/s41564-018-0261-0
Ahrendt SR, Quandt CA, Ciobanu D, Clum A, Salamov A, Andreopoulos B, Cheng JF, Woyke T, Pelin A, Henrissat B, Reynolds NK, Benny GL, Smith ME, James TY, Grigoriev IV
Leveraging single-cell genomics to expand the fungal tree of life.
Nat Microbiol. 2018 Dec;3(12):1417-1428. doi: 10.1038/s41564-018-0261-0
Funding
The work conducted by the U.S. Department of Energy Joint Genome
Institute is supported by the Office of Science of the U.S.
Department of Energy under Contract No. DE-AC02-05CH11231.
