Figure 4, Absrel Diversifying Selection Branch Analysis For Domestic vs. Wild FLS2 Sequences
The Absrel generated gene tree for: Top Left: 2 domestic tomato FLS2 sequences from one species (Solanum lycopersicum) and 6 wild tomato FLS2 sequences from three species (Solanum pimpinellifolium, chiliense, and pennellii); Top Right: 3 domestic potato FLS2 sequences from one species (Solanum tuberosum) and 2 wild potato FLS2 sequences from one species (Solanum verrucosum); Bottom Left: 3 domestic hot pepper FLS2 sequences from one species (Capsicum annuum cv. CM334) and 6 wild hot pepper FLS2 sequences from two variants (Capsicum annuum var. Glabriusculum and cv. Zunla-1); and Bottom Right: 1 domestic tobacco FLS2 sequence from one species (Nicotiana tabacum) and 10 wild tobacco FLS2 sequences from four species (Nicotiana sylvestris, benthamiana, attenuata, and tomentosiformis). However, not all the wild tobacco FLS2 sequences are shown on the bottom right tree. The FLS2 coding sequences were obtained using a TBLASTN search using the FLS2 from Arabidopsis thaliana against Sol Genomics Database and Ensembl. The topology of the tree indicates the level of relatedness between the different sequences. The length of the branch indicates the rate of positive selection in the branch (rate of nonsynonymous substitutions (dN) divided by the rate of synonymous substitutions(dS)) where longer branches mean higher rates of positive selection. The color of the branch ranging from black to green indicates the level of diversifying selection that Absrel found evidence for where the greener the color of the branch the more evidence of diversifying selection in that location. In the red boxes are the FLS2 sequences that Absrel found diversifying evidence for using a p-value of greater than or equal to 0.5. With p-values of 0.0, Absrel highlighted these branches as undergoing diversifying selection: the Solanum pimpinellfoilium and Solanum chilenese branches with dN/dS values of 100,000 and 188 respectively, the Solanum verrucosum branch with a dN/dS value of 92,200,000,000, the Capsicum annuum cv. Zunla-1 branch with a dN/dS value of 15,100,000,000,000,000, and the node before the split of the Nicotiana sylvestris and Nicotiana benthamiana branches where the node has a dN/dS value of 10,000,000,000. Therefore, Absrel highlighted five wild FLS2 sequences (rather than domesticated FLS2 sequences) as under the greatest rates of diversifying selection.