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Table S1 Names of the Romanian sampling sites with latitude and longitude (Global Positioning System - WGS84) including haplotype names and temperature ranges.

Table S2 Reference haplotypes and names of the Slovenian sampling sites with latitude and longitude (Global Positioning System - WGS84).

Table S3 Reference haplotypes and names of the Macedonian sampling sites with latitude and longitude (Global Positioning System - WGS84).

Table S4 Reference haplotypes and names of the Italian sampling sites with latitude and longitude (Global Positioning System - WGS84).

Table S5 Haplotype list of honeybee populations.

Table S6 Analysis of two-group multivariate permutation (TGMP) (P values) based on Mahalanobis distance (D2) computation for Southern Carpathians honeybee populations.

Fig. S1 Use of an ad hoc quantity (∆K) for computing the best K (as in Evanno et al. 2005).

Fig. S2 Principal Component Analysis (PCA) of six morphometric characteristics in honeybee population from Southern Carpathians.

Fig. S3 Principal Coordinates Analysis (PCoA) for honeybee populations from four countries: Romania (N = 118), Italy (N = 12), Slovenia (N = 10) and Macedonia (N = 11).

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