A maximum likelihood tree represents the phylogenetic relationship among 285 partial mtDNA D-loop sequences from members of the genus Equus including haplotypes of the Hungarian draft and reference sequence
The phylogenetic tree was based on the Tamura-Nei model of evolution with gamma distribution of rates and 1,000 bootstrap replicates (Tamura & Nei, 1993). Different colors represent different haplogroups differentiated by sequence motifs of the mtDNA clusters by : A1 (light purple), A2 (dark blue), A5 (brown), A6 (light blue), B1 (yellow), B2 (turquoise), C1 (dark green), C2 (red), D2 (mustard yellow), D3 (dark purple), E (black), F1 (grey), F2 (light green), G (orange). The red square represents the reference sequence.
Median network of horse haplotypes
Included are those of the 285 Hungarian draft individuals analysed in this study, plus sequences of European breeds available in the Genbank nucleotide database. Sectors are proportional to the frequency of each haplotype. Horizontal bars represent the mutational steps. MH, Hungarian draft, our samples (number of samples: 285); Rin, Rhineland Heavy draft (25); Nori, Noriker (10); Tat, Turkoman Akhal Teke (19); Ital, Italian heavy draught (27); Bre, Breton (58); Arb, Arabian (10); Fin, Finn horse (2); PP, Polish primitiv (3); HC, Hucul (10); Zem, Zemaitukai heavy type (7); Shi, Shire (10); Vlad, Vladimir draught horse (21); Cly, Clydesdale (17); Irn, Iranian (14); Tra, Trakehner (4); Csp, Caspian Pony (5); Ph, Polish heavy (3); Mrn, Maremmano (15); Pos, Posavina (20); Akt, Akhal teke (16); Shet, Shetland pony (12); Pur, Pura Raza Espanola (17); Hhv, Croatian heavy draft (11); Mur, Murinsulaner (8); Fell, Fell (2); Ic, Icelandic Horse (2); Nf, Norwegian Fjord (2); Rom, Romanian draft horse (1); Per, Percheron (3); Lhd, Lithuanian heavy drought (3); Old, Oldenburg (1); And, Andalusian (2); Sil, Silesian (1); Ital, Italian (3); Sc, Scottish Highland (2); Be, Belgian (13); Tho, Thoroughbred horse (1); Aph, American Paint horse (1); Han, Hanovarian (3); Wiel, Wielkopolski (3); Syr, Syrian (5); Gia, Giara horse (2); His, Holstein (2); Prze, Przewalskii (3); Got, Gotland (3); Sf, Suffolk Punch (1); West, Westfalian (1); Chin, Chincoteague pony (1); Cle, Cleveland bay horse (11); Sad, Saddlebred (1); Ex, Exmoor pony (1).
Matrix of pairwase FST values
Polymorphic sites in the control region of the Hungarian draft horse population sequenced
Nucleotide positions 15531–15752 as compared to GenBank reference sequence X79547 . Sequence identity is indicated by ‘.’, gaps by ‘-‘.