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Fig. 4 | Genome Biology

Fig. 4

From: Genomic analyses of an extensive collection of wild and cultivated accessions provide new insights into peach breeding history

Fig. 4

Selective sweeps underlying the changes in fruit taste during domestication and improvement. a–d Selection on the phe QTL during peach domestication. a Regional Manhattan plot of an association peak for levels of total phenolic compounds on chromosome 2. The gray horizontal dashed line indicates the Bonferroni significance threshold of GWAS (P < 6.5 × 10− 8). Previous reported phe QTL is highlighted under the Manhattan plot. The selective signals on the genomic regions harboring the phe QTL are supported by sharp ROD (b), high CLR (c), and high FST (d). e–h Selection on a SSC QTL on chromosome 4 during domestication. e Regional Manhattan plot of an association peak for SSC. The gray horizontal dashed line indicates the Bonferroni significance threshold of GWAS (P < 2.6 × 10− 8). Previous reported SSC QTL is highlighted. The selective signals on the genomic regions harboring SSC QTL are supported by sharp ROD (f), high CLR (g), and high FST (h). A heat map of the expression level of a candidate gene, Prupe.4G197000, during different stages of fruit development (20, 40, 60, 80, 100, and 120 days after bloom from left to right) is shown in g. i–l Selection on a SSC QTL on chromosome 5 during improvement. i Regional Manhattan plot of an association peak for SSC. The gray horizontal dashed line indicates the Bonferroni significance threshold of GWAS (P < 2.6 × 10− 8). Previously mapped SSC and suc QTLs are highlighted. The selective signals on the genomic regions harboring SSC QTL are supported by sharp ROD (j), high CLR (k), and high FST (l). The horizontal dashed lines in (d), (h), and (l) indicates the 5% cut off of FST

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