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Fig. 2 | BMC Ecology and Evolution

Fig. 2

From: A novel distribution of supergene genotypes is present in the socially polymorphic ant Formica neoclara

Fig. 2

Principal component analysis (PCA) for the low-recombining region of chromosome 3. The PCAs compare principal components 1 (PC1) and 2 (PC2) (A), and 1 (PC1) and 3 (PC3) (B). Principal component 1 distinguishes three genotypes on chromosome 3. Negative FIS values (based on markers on chromosome 3) distinguish individuals that are heterozygous for the supergene (brown cluster) from the homozygotes (green and yellow clusters, positive FIS values). To verify which cluster is homologous with the Sm/Sm genotype in F. selysi, we compared the three genotypes to the F. selysi reference allele (Sm). Individuals in the green cluster tend to be homozygous for the reference allele across the supergene, suggesting that they are Sm/Sm. Thus, the yellow clusters of homozygotes have region-specific versions of the Sp/Sp genotype. Principal component 2 shows geographic structure in the Sp haplotype, while PC3 shows geographic structure in the Sm haplotype

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