Genome assembly of a commercial tomato hybrid (Funtelle) for haplotyping an introgression that confers TMV resistance

<p>Plant crop genome assemblies facilitate the characterization of genetically diverse cultivated and wild germplasm. </p> <p>The cultivated tomato (Solanum lycopersicum) has been improved through the introgression of genetic material from related wild species, including genetic resistance to pandemic strains of Tobacco Mosaic virus (TMV) and tomato mosaic virus (ToMV) originating from Solanum peruvianum. The exact size and the structure of the introgression from Solanum peruvianum containing the TMV/ToMV resistance gene (Tm-2^2 gene) has remained unknown, although it was known to include at least half of the physical length of chromosome 9.<br> <br> We selected a commercial cultivated tomato cultivar called Funtelle, which contains the Tm-2^2 resistance introgression in a hemizygous state, and generated Oxford Nanopore sequencing reads. Using Flye, a genome assembly tool, we assembled the reads. The assembled DNA sequences (contigs) from the Flye assembly are made available here. Subsequently, as described in detail in the associated manuscript, we made use of the assembled contigs for comprehensive haplotyping of the chromosome 9 introgression region in this commercial hybrid.<br> <br> The raw Oxford Nanopore sequencing reads of the Funtelle variety are available via the European Nucleotide Archive under project number PRJEB44956.</p>