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The Tobacco Genome Sequence and Its Comparison With Those of Tomato and Potato

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The Tobacco Genome Sequence and Its Comparison With Those of Tomato and Potato

Nicolas Sierro et al. Nat Commun.

Abstract

The allotetraploid plant Nicotiana tabacum (common tobacco) is a major crop species and a model organism, for which only very fragmented genomic sequences are currently available. Here we report high-quality draft genomes for three main tobacco varieties. These genomes show both the low divergence of tobacco from its ancestors and microsynteny with other Solanaceae species. We identify over 90,000 gene models and determine the ancestral origin of tobacco mosaic virus and potyvirus disease resistance in tobacco. We anticipate that the draft genomes will strengthen the use of N. tabacum as a versatile model organism for functional genomics and biotechnology applications.

Conflict of interest statement

The research described in this article was financially supported by Philip Morris International. All authors are employees of Philip Morris International.

Figures

Figure 1
Figure 1. Tobacco genome.
Blue and red represent features of S and T origins in the Nicotiana tabacum TN90 genome, respectively. Track a indicates the origin of the linkage group previously determined by SSR amplification. Track b shows the assignment of the linkage group origin based on sequence identity with N. sylvestris, N. tomentosiformis and N. otophora. Track c shows the origin of the WGP physical map contig used for super-scaffolding. The blue, red and green histograms (tracks d, e and f, respectively) indicate the percentage of each 2 Mb region covered by an N. sylvestris, N. tomentosiformis or N. otophora sequence of at least 1,000 bp and 98% identity. Track g shows the density of coding regions identified by mapping of reference tomato proteins. Track h gives the position of SSR markers mapped to the genome sequences. The centre links regions of the N. tabacum genome based on sequence homology, as determined by reference tomato proteins mapping at two locations.
Figure 2
Figure 2. Synteny between Nicotiana tabacum, Nicotiana tomentosiformis and Nicotiana acuminata genetic linkage groups and tomato chromosomes.
Links between tomato and tobacco are based on the mapping of tomato proteins to linkage group-anchored tobacco sequences. Note that not all regions identified by this method should necessarily be considered as syntenic. Links between tobacco and N. tomentosiformis (red) and N. acuminata (blue) are based on shared SSR (full lines) and COSII (dotted lines) markers. Triangles indicate the amplification of the corresponding SSR in N. tomentosiformis (red) or N. sylvestris (blue).
Figure 3
Figure 3. Protein clusters shared between tobacco and other increasingly more distant species phylogenetically.
Nicotiana benthamiana is a representative of the Nicotiana genus, Solanum lycopersicum (tomato) is a representative of the Solanum genus and Arabidopsis thaliana is a representative of the eudicotyledons.

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