Supplementary Materials for Lin et., 2022

Supplementary Figure S1: Comparison of our work and previous (Qi et al. 2013) in the statistics calculation strategy between populations. Supplementary Figure S2: Phylogenetic tree of seven closely related species in Cucurbitaceae. Supplementary Figure S3: Decay of linkage disequilibrium (LD) in four populations. Supplementary Figure S4: Manhattan plots of p values of iHS (A), nSL (B), XP-EHH (C) and Rsb (D) in East Asian. Supplementary Figure S5: Manhattan plots of p values of iHS (A), nSL (B), XP-EHH (C) and Rsb (D) in Eurasian. Supplementary Figure S6: Manhattan plots of p values of iHS (A), nSL (B), XP-EHH (C) and Rsb (D) in Xishuangbanna. Supplementary Figure S7: Venn diagram for selective sites in East Asian. Supplementary Figure S8: Venn diagram for selective sites in Eurasian. Supplementary Figure S9: Venn diagram for selective sites in Xishuangbanna. Supplementary Table S1: Individuals and SNPs kept after quality filtering. Supplementary Table S2: Decay of linkage disequilibrium (LD), measured by r2 values, in four populations. Supplementary Table S3: The parameters in BEAGLE5.0 used to calculate haplotypes in each population. Supplementary Table S4: Signatures showing selection detected by the four methods in the cultivated populations. Supplementary Table S5: P values of the tests for equality of the proportion of selective signatures detected by each two methods in each cultivated population. Supplementary Table S6: States of selective SNPs only detected in the East Asian population. Supplementary Table S7: Functions of genes containing selective SNPs in the East Asian population. Supplementary Table S8: States of selective SNPs only detected in the Eurasian population. Supplementary Table S9: Functions of genes containing selective SNPs in the Eurasian population. Supplementary Table S10: States of selective SNPs only detected in the Xishuangbanna population. Supplementary Table S11: Functions of genes containing selective SNPs in the Xishuangbanna population.