(ii) The reduction of nucleotide diversity and the nucleotide polymorphism were highly correlated (r = 0.997, p < 0.001, (Additional file 2: Figure S5). Consequently, we only used the reduction of nucleotide diversity (πc/πw) for further analysis. Using a threshold of 1% (−log10 (πc/πw) > 1.34), a total of 232 contigs were identified as having an extremely low diversity in the cultivated sample compared to their wild relatives, and were therefore considered as candidates. (Fig. 2-b).