Status
[February 2024] The Phycomyces blakesleeanus NRRL1555 v4.1 genome was sequenced with PacBio, assembled with HiFiAsm, and annotated with the JGI Annotation Pipeline. For annotation, a merged transcriptome comprised of IsoSeq reads and Trinity-assembled transcripts (from wild type NRRL1555 and the L51 mutant) was used. Mitochondrial genome was assembled separately and is available in the downloads section.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 58.78 |
| Sequencing read coverage depth | 265.61x |
| # of contigs | 17 |
| # of scaffolds | 17 |
| # of scaffolds >= 2Kbp | 17 |
| Scaffold N50 | 3 |
| Scaffold L50 (Mbp) | 6.19 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 15.42, 9.16, 6.19 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 201668689 | 199362360 | 98.9% |
| Ests | dark_ESTs | 22953 | 22317 | 97.2% |
| Ests | light_ESTs | 22047 | 21380 | 97.0% |
| Other | IsoSeq_hq_reads | 168333 | 141505 | 84.1% |
| Other | L51_Trinity_transcriptome | 79926 | 74567 | 93.3% |
| Other | NRRL1555_Trinity_transcriptome | 93734 | 77089 | 82.2% |
| Other | WT_and_L51_merged_Trinity_transcriptome | 107017 | 89074 | 83.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1994 | 1704 |
| transcript | 1541 | 1311 |
| exon | 307 | 176 |
| intron | 115 | 89 |
| description: | ||
| protein length (aa) | 420 | 341 |
| exons per gene | 5.01 | 4 |
| # of gene models | 12773 |
Collaborators
- Luis Corrochano, Universidad de Seville, Spain
- Victoriano Garre, Universidad de Murcia, Spain
Links
- JGI PhyloGroup Portals: Fungi Mucoromycota Mucoromycotina Mucorales
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.
