New Tomato De Novo Genome Assembly using Long Read Sequencing
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Assembly summary
| Sequenced cultivar | Microtom |
|---|---|
| Genome size | 817Mbp |
| BUSCO score | 96.5% |
| Long Read Sequencing (PacBio) | |
| Number of contigs | 743 |
| N50 | 3.4Mbp |
| + Optical mapping (Bionano) | |
| Number of scaffolds | 447 |
| N50 | 34.2Mbp |
| + Linked reads (Chromium 10x) | |
| Number of scaffolds | 392 |
| N50 | 44.4Mbp |
Annotation summary
| Total number of genes | 39 110 |
|---|---|
| Number of protein coding genes | 36 002 |
| Number of non protein coding genes | 3 108 |
| UTR | |
| Percent genes with five UTR | 70% |
| Percent genes with three UTR | 71% |
| BUSCO score | 96.1% |
Disclaimer
The tomato genome data contained in this site are made available by the Laboratory of Genomics and Biotechnology of the Fruits (GBF) ahead of publication for non-commercial purposes only. GBF reserves the priority to use these data for genome level analyses. By using these data, you agree not to use them for the publication of such genome level analyses without the written consent of GBF.
If you agree to those terms, you can freely use the resources from this website
If you have any question regarding the data you can write an email to the support team support.gbf@listes-diff.ensat.fr, stating your name, surname, affiliation, institutional email address, and purpose of the request.
Acknowledgements
The tomato genome assembly and annotation was performed by the bioinformatics team of @GBF. We thank :
- @Get-PlaGe for the PacBio and Chromium 10x sequencing,
- the French Plant Genomic Resources Centre ( @CNRGV ) for optical mapping,
- Jérôme Gouzy and Erika Sallet from the Laboratry of Plant-Microb Interactions ( @LIPM ) bioinformatics platform for providing the annotation pipeline (EuGen-EP),
- the genotoul bioinformatics platform Toulouse Midi-Pyrenees ( @Bioinfo Genotoul ) for providing computing and storage resources.