Mitochondrial DNA diversity of D-loop region in three native Turkish cattle breeds

Abstract

Abstract. This study aimed to reveal the genetic variability of mitochondrial DNA (mtDNA) displacement-loop (D-loop) region in 62 animals belonging to three native Turkish cattle breeds, namely Anatolian Black (AB), East Anatolian Red (EAR) and Zavot (ZAV), and to conduct phylogenetic relationship analyses to obtain deeper information on their genetic origin and breeding history by comparison of 6 taurine and 11 indicine breeds, together with 66 polymorphic sites, a total of 31 haplotypes, of which 15, 10 and 6 were detected in AB, EAR and ZAV, respectively. Mean nucleotide and haplotype diversity were 0.01 and 0.891, respectively, whereas the genetic differentiation derived from Wright's FST index was 0.174 across the breeds. A significant level of total variation (17.42 %) was observed among breeds in molecular variance analysis. Six main haplogroups (T, T1, T2, T3, Q and I2) were detected in Anatolian cattle populations, where T3 was the most frequent among breeds (43.55 %), whereas I2, an indicine specific haplogroup, was observed only in ZAV. At the breed level, phylogenetic analyses supported by 198 sequences of 17 cattle breeds and 3 outgroup species retrieved from the GenBank clustered native Turkish cattle breeds with the taurine group rather than the indicine one, as expected. However, indicine admixture at low frequency (8.89 %) was detected in the ZAV breed for the first time due to more likely gene flow from indicine cattle breeds raised in neighbour countries, particularly Iran. This finding should be further investigated in all native Turkish and indicine cattle breeds from nearby countries to clarify gene flow and indicine admixture in Anatolian cattle.

Genome‐wide screening for selection signatures in native and cosmopolitan cattle breeds reared in Türkiye

“…In contrast, no methodological selection practices regarding economically important traits are carried out in native cattle breeds whose genomes are largely shaped by natural selection. Although Türkiye is a part of the taurine cattle domestication centre (Demir et al, 2023) and has the potential to shed light on the effects of natural selection in cattle genome, no study focusing on revealing selection signatures in native Turkish cattle breeds are available in the literature. Hence, this is the first comprehensive study aiming to reveal genome‐wide selection signatures in native and cosmopolitan cattle breeds reared in Türkiye via iHS, XP‐EHH and F ST approaches.…”