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. 2021 Jun 24;10:e64165. doi: 10.7554/eLife.64165

Figure 5. Patterns of local ancestry across focal chromosome regions of MG114 and MG117, enlarged to show variation in introgression block break points at color pathway genes.

(A) CHS ancestry at carotenoid biosynthesis gene PSY1 on chromosome 3 correlates with observed fruit color variation in MG114. (B) CHS ancestry at carotenoid biosynthesis gene CYC-B on chromosome 6 correlates with fruit color variation in MG117. Each cell represents 100 kb. Empty cells indicate windows with no sequence data. Empty cells are ghost shaded with each ancestry color based on neighboring assignments.

Figure 5.

Figure 5—figure supplement 1. Heterozygosity along chromosome 6 of population MG117.

Figure 5—figure supplement 1.

CHS ancestry at CYC-B (dashed line) in MG117-1 and MG117-4 is heterozygous, as shown by elevated heterozygosity estimates at that location in these individuals.
Figure 5—figure supplement 2. Median divergence estimates between MG117 individuals and MG115 at CYC-B.

Figure 5—figure supplement 2.

The hidden Markov model (HMM) correctly classifies intermediately diverged regions as heterozygous.
Figure 5—figure supplement 3. Coding sequence alignment of PSY1 for nine wild tomato species (12 accessions).

Figure 5—figure supplement 3.

Endemic accessions are colored orange. The nonsynonymous substitution which defines the endemic clade is indicated with an orange arrow. Data were obtained from Pease et al., 2016.