Status
[November 2016] The Trametes gibbosa CIRM-BRFM 1770 genome was sequenced with PacBio, assembled with Falcon, and annotated with the JGI Annotation pipeline. Mitochondrial genome was assembled separately and is available in the downloads section.
Summary statistics for the Trametes gibbosa v1.0 release
are below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 33.11 |
| Sequencing read coverage depth | 76.67x |
| # of contigs | 103 |
| # of scaffolds | 103 |
| # of scaffolds >= 2Kbp | 103 |
| Scaffold N50 | 18 |
| Scaffold L50 (Mbp) | 0.58 |
| # of gaps | 0 |
| % of scaffold length in gaps | 0.0% |
| Three largest Scaffolds (Mbp) | 1.77, 1.62, 1.37 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| EstClusters | ESTclusters | 65112 | 62947 | 96.7% |
| Ests | est.fasta | 375057003 | 372011739 | 99.2% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1809 | 1528 |
| transcript | 1476 | 1246 |
| exon | 252 | 152 |
| intron | 71 | 59 |
| description: | ||
| protein length (aa) | 429 | 349 |
| exons per gene | 5.86 | 5 |
| # of gene models | 12038 |
Collaborators
Eric Record (PI) and Marie-Noëlle Rosso, Biodiversity and Biotechnology of Fungi, INRA - Aix Marseille Université
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Hage H, Miyauchi S, Virágh M, Drula E, Min B, Chaduli D, Navarro D, Favel A, Norest M, Lesage-Meessen L, Bálint B, Merényi Z, de Eugenio L, Morin E, Martínez AT, Baldrian P, Štursová M, Martínez MJ, Novotny C, Magnuson JK, Spatafora JW, Maurice S, Pangilinan J, Andreopoulos W, LaButti K, Hundley H, Na H, Kuo A, Barry K, Lipzen A, Henrissat B, Riley R, Ahrendt S, Nagy LG, Grigoriev IV, Martin F, Rosso MN
Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay.
Environ Microbiol. 2021 Oct;23(10):5716-5732. doi: 10.1111/1462-2920.15423
Hage H, Miyauchi S, Virágh M, Drula E, Min B, Chaduli D, Navarro D, Favel A, Norest M, Lesage-Meessen L, Bálint B, Merényi Z, de Eugenio L, Morin E, Martínez AT, Baldrian P, Štursová M, Martínez MJ, Novotny C, Magnuson JK, Spatafora JW, Maurice S, Pangilinan J, Andreopoulos W, LaButti K, Hundley H, Na H, Kuo A, Barry K, Lipzen A, Henrissat B, Riley R, Ahrendt S, Nagy LG, Grigoriev IV, Martin F, Rosso MN
Gene family expansions and transcriptome signatures uncover fungal adaptations to wood decay.
Environ Microbiol. 2021 Oct;23(10):5716-5732. doi: 10.1111/1462-2920.15423
Links
Fungal Biodiversity and Biotechnology Laboratory, INRA and Aix-Marseille University
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.
