Status
[June 2020] The genome sequence of Tuber brumale was not determined by the JGI.
The genome sequence was assembled with ALLPATHS-LG by Claude Murat (INRA Nancy - France).
The genome was provided by INRA on October 2016. The annotation was done by Emmanuelle Morin of INRA using the JGI Annotation Pipeline.
This copy of the genome include the mitochondrial chromosome or genes.
Summary statistics for the Tuber brumale v1.0 release are
below.
| Genome Assembly | |
| Genome Assembly size (Mbp) | 171.44 |
| Sequencing read coverage depth | 130x |
| # of contigs | 6649 |
| # of scaffolds | 1475 |
| # of scaffolds >= 2Kbp | 1315 |
| Scaffold N50 | 160 |
| Scaffold L50 (Mbp) | 0.34 |
| # of gaps | 5174 |
| % of scaffold length in gaps | 6.4% |
| Three largest Scaffolds (Mbp) | 1.32, 1.14, 1.09 |
| ESTs | Data set | # sequences total | # mapped to genome | % mapped to genome |
| Ests | est.fasta | 257542399 | 253789334 | 98.5% |
| Other | Tubbr1_RNA_contigs | 54621 | 47278 | 86.6% |
| Gene Models | FilteredModels1 | |
| length (bp) of: | average | median |
| gene | 1546 | 1269 |
| transcript | 1338 | 1068 |
| exon | 396 | 248 |
| intron | 89 | 65 |
| description: | ||
| protein length (aa) | 381 | 285 |
| exons per gene | 3.38 | 3 |
| # of gene models | 12382 |
Collaborators
- DOE Joint Genome Institute
- Francis Martin at MycorWeb
- Claude Murat at MycorWeb
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Morin E, Murat C, Cichocki N, De la Varga H, Kohler A, Xu J, Grigoriev IV, Martin FM
Draft Genome Sequences of the Black Truffles Tuber brumale Vittad. and Tuber indicum Cook & Massee.
Microbiol Resour Announc. 2021 Jan 28;10(4):. doi: 10.1128/MRA.00799-20
Morin E, Murat C, Cichocki N, De la Varga H, Kohler A, Xu J, Grigoriev IV, Martin FM
Draft Genome Sequences of the Black Truffles Tuber brumale Vittad. and Tuber indicum Cook & Massee.
Microbiol Resour Announc. 2021 Jan 28;10(4):. doi: 10.1128/MRA.00799-20
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.
