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Table S1 Microsatellite loci optimized in the three Chionodraco species.

Table S2 Posterior probability for M2, M4 and M5 (the models with the highest posterior probabilities) computed varying the divergence times among species.

Table S3 Prior distributions of the model parameters in the ABC analysis.

Table S4 Bayes Factor analysis to compare long-term demographic stability with exponential growth/decline.

Table S5 Summary statistics used in ABC analysis and their value in the real data.

Table S6 Posterior probabilities of the models (regression approach) under different numbers of retained simulations.

Table S7 Hardy-Weinberg Equilibrium probabilities calculated for each of the 18 loci and for each of the six population samples.

Table S8 Posterior probability of M5 in pairwise comparisons.

Table S9 Estimated parameters in the M5 model.

Fig. S1 Analysis for identification of loci under selection in the comparison between Chionodraco hamatus and C. myersi using LOSITAN.

Fig. S2 Analysis for identification of loci under selection in the comparison between C. hamatus and C. rastrospinosus using LOSITAN.

Fig. S3 Analysis for identification of loci under selection in the comparison between C. myersi and C. rastrospinosus using LOSITAN.

Fig. S4 Estimation of the most likely number of genetic groups following Evanno et al. (2005).

Fig. S5 ABC analysis: posterior probabilities that each model is correct given the joint observed posterior probabilities of all five models, as a function of the bandwidth in the density estimation (adjusted regression approach).

Fig. S6 ABC analysis: posterior distributions of summary statistics obtained in 10 000 simulations under M5. Summary statistics in this analysis differ from those used for model selection.

Fig. S7 ABC analysis: Principal Component Analysis based on the 15 summary statistics in Figure S6 obtained in 10 000 simulations under M5.

Fig. S8 ABC analysis: Principal Component Analysis of the 10 000 simulations closest to the observed summary statistics under each demographic model.

Fig. S9 ABC analysis: posterior distributions of the demographic parameters under M5.

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