Table 1.
List of the species and the sequences included in phylogenetic analyses.
Fig 1.
World map with enlargement on the Mediterranean basin, indicating the geographical distribution of samples used in the present study.
Table 2.
Calibration points used for molecular datings.
Fig 2.
Structural organization of Cyprus mouflon mitogenome.
Arrows indicate the reading frame orientation of each strand.
Table 3.
Organization of the Cyprus mouflon mitochondrial genome.
Fig 3.
Rooted tree obtained by Bayesian inference for 28H dataset showing two clusters of sheep haplogroups.
Nodal supports are indicated below the nodes (posterior probability for BI / bootstrap values for ML). Molecular dating in million years are indicated above the nodes. Sample codes are listed in Table 1.
Table 4.
Genetic diversity estimates obtained for whole genome (28H) (a) and D-loop (b) datasets.
Table 5.
Molecular dating in million years obtained in the present study for the main splitting events within Ovis genus based seven calibration points (CP).
Fig 4.
Rooted tree obtained by Bayesian inference for D-loop region and the corresponding 95% statistical parsimony networks.
Bayesian groups inferred by the Bayesian assignment test are also represented through coloured boxes (G 1 in yellow, G 2 in blue, G 3 in red, G 4 in green). Nodal supports are indicated above the nodes (posterior probability for BI / bootstrap values for ML). Groups retrieved using the 95% statistical parsimony networks are shown on the right. Each black dot in the networks represents a point mutation. Haplotypes in the network are coloured according to the groups of individuals analyzed (see Table 1 for details). Sample codes are given in Table 1.
Fig 5.
A median-joining network superimposed on the sample map.
It highlights the geographic distribution of D-loop haplotypes. N1, N2 and N3 indicate the three main groups evidenced in this analysis. CCA indicate the likely common ancestor. The capital letters (A, B, C, D and E) inside white spots on the network correspond to the five sheep haplogroups used as references. Small red plots on the nodes, correspond to median vectors representing hypothetic connecting sequences, calculated with a maximum parsimony method. The long branches leading to isolated haplotypes were shortened and indicated with ‘‘\\”. The numbers of mutations between haplotypes that are greater than one are reported on the network branches. Sample codes are given in Table 1.