Status
[December 2020] The Neocallimastix sp. WI3-B v1.0 genome was sequenced with PacBio, assembled with Flye, and annotated with the JGI Annotation Pipeline.
Summary statistics for the Neocallimastix sp. WI3-B v1.0
release are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 206.81 |
| Sequencing read coverage depth | 23.17x |
| # of contigs | 306 |
| # of scaffolds | 302 |
| # of scaffolds >= 2Kbp | 292 |
| Scaffold N50 | 25 |
| Scaffold L50 (Mbp) | 2.68 |
| # of gaps | 4 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 6.75, 5.87, 5.59 |
While 99.87% of Trinity-assembled contigs map to the
Neocallimastix sp. WI3-B assembly, only 83.6% map with
high accuracy.
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 111333614 | 110483582 | 99.2% |
| Other | Trinity_assembled_Illumina_transcriptome | 62441 | 52205 | 83.6% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 2349 | 1797 |
| transcript | 1597 | 1201 |
| exon | 348 | 146 |
| intron | 212 | 153 |
| description: | ||
| protein length (aa) | 497 | 358 |
| exons per gene | 4.59 | 3 |
| # of gene models | 28960 |
Collaborators
- Kevin Solomon, Purdue University, IN
Links
- JGI PhyloGroup Portals: Fungi Chytridiomycota Neocallimastigomycetes
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.
