Fig. 5: The gene pool of the wild A. gifuensis population is maintained by natural selection.
a A schematic diagram illustrating the definition of ΔAFN. The AFs of wild population were affected by the released population. The ancestral state of non-YUN wild populations could be inferred from the YUN population plus outgroup A. ervi. b Definition of strongly affected sites (red) and weakly affected sites (blue) according to the significance of ΔAFN. Two-sided Fisher’s exact tests were used and then adjusted by multiple testing correction to obtain an FDR. c Clarification of the hypothesis we are going to test based on the observed and expected Nonsyn/Syn ratios. d Histogram showing the numbers of SNPs of each category. HEB, HEN, or all non-YUN individuals were used. e Nonsynonymous to synonymous ratios of different sets of SNPs. Strongly affected sites (red) and weakly affected sites (blue) were compared. Unadjusted P values were obtained by two-sided Fisher’s exact tests. f Observed and expected Nonsyn/Syn ratios for various sets of SNPs. HEB, HEN, or all non-YUN individuals were used. Bootstrap was done 1000 times. Unadjusted P-values were obtained by one-sided randomization tests. When none of the 1000 trials fall into the observed ranges between the two dashed lines, then P < 0.001 was recorded. Source data are provided in the Source Data file.
