Phylogenetic Relationships of Turkish Indigenous Donkey Populations Determined by Mitochondrial DNA D-loop Region

Autor: Mehmet Soysal, Fulya Özdil, Emel Özkan Ünal, Eser Kemal Gürcan, Serdar Genç, Sezen Arat, Selçuk Kaplan
Jazyk: angličtina
Rok vydání: 2020
Předmět:
Tajikistan
haplotype
genomic DNA
polymerase chain reaction
mitochondrial DNA
phylogeny
Genetic diversity
donkey
Turkey (republic)
Haplogroup
Nucleotide diversity
cytochrome c oxidase
genetic variability
lcsh:Zoology
genetic polymorphism
gene mutation
lcsh:QL1-991
D-loop
DNA extraction
GeneralLiterature_REFERENCE(e.g.
dictionaries
encyclopedias
glossaries)
cladistics
lcsh:Veterinary medicine
Phylogenetic tree
mtDNA
genetic diversity
nucleotide
Turkish donkeys
genetic similarity
Donkey
haplogroup
breed
GeneralLiterature_INTRODUCTORYANDSURVEY
MtDNA
animal experiment
DNA sequence
gene frequency
Biology
Article
domestication
geographic distribution
phylogenetic tree
Domestication
nonhuman
General Veterinary
Haplotype
maternal origin
population structure
gene structure
DNA isolation
Evolutionary biology
microbial diversity
lcsh:SF600-1100
Animal Science and Zoology
Maternal origin
Zdroj: Animals : an Open Access Journal from MDPI
Animals
Volume 10
Issue 11
Animals, Vol 10, Iss 1970, p 1970 (2020)
ISSN: 2076-2615
Popis: In this study, to analyze the mtDNA D-loop region and the origin of the maternal lineages of 16 different donkey populations, and to assess the domestication of Turkish indigenous donkeys in seven geographical regions, we investigated the DNA sequences of the D-loop region of 315 indigenous donkeys from Turkey. A total of 54 haplotypes, resulting from 35 polymorphic regions (27 parsimoniously informative and 6 singleton sites), were defined. Twenty-eight of these haplotypes are unique (51.85%), and 26 are shared among different Turkish indigenous donkey populations. The most frequent haplotype was Hap 1 (45.71%), followed by two haplotypes (Hap 4, 15.55% and Hap 7, 5.39%). The breed genetic diversity, evaluated by the haplotype diversity (HD) and nucleotide diversity (&pi
D), for the Turkish donkey populations ranged from 0.533 ±
0.180 (Tekirdağ&ndash
Malkara, MAL) to 0.933 ±
0.122 (Aydin, AYD), and from 0.01196 ±
0.0026 (Antalya, ANT) to 0.02101 ±
0.0041 (Aydin, AYD), respectively. We observed moderate-to-high levels of haplotype diversity and moderate nucleotide diversity, indicating plentiful genetic diversity in all of the Turkish indigenous donkey populations. Phylogenetic analysis (NJT) and median-joining network analysis established that all haplotypes were distinctly grouped into two major haplogroups. The results of AMOVA analyses, based on geographic structuring of Turkish native donkey populations, highlighted that the majority of the observed variance is due to differences among samples within populations. The observed differences between groups were found to be statistically significant. Comparison among Turkish indigenous donkey mtDNA D-loop regions and haplotypes, and different countries&rsquo
donkey breeds and wild asses, identified two clades and which is named Somali (Clade IV) and Nubian (Clade V) lineages. The results can be used to understand the origin of Turkish donkey populations clearly, and to resolve the phylogenetic relationship among all of the different regions.
Databáze: OpenAIRE
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