Mitochondrial D-loop sequence variation and maternal lineage in the endangered Cleveland Bay horse

Dell, Andrew; Curry, Mark; Yarnell, Kelly; Starbuck, Gareth; Wilson, Philippe B.

doi:10.1371/journal.pone.0243247

Cited by 5 publications

(2 citation statements)

References 21 publications

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“…At the same time investigation of the hypervariable region (D-loop) helps research on the diversification of inheritance on maternal lines inside the population, and also can help investigate the phylogenetic relationship between animals. Consequently, mitochondrial DNA in widely used as an important instrument of investigation of evolutionary and phylogenetic history of cattle [5], swine, chicken, as well as horses [6,7,8]. D-loop can be used for differentiation between the breeds and inside one breed [9].…”

Section: Resultsmentioning

confidence: 99%

Genetic diversity in maternal lines of cognate Mongolian horses of Mongolia, China and Russia

et al. 2021

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Analysis of D-loop of mitochondrial DNA of 4 populations of Mongolian horses from different origin was conducted. Nowadays Mongolian horses massive is divided to several countries. Among them there are Mongolia, Inner Mongolia part of China, and Kalmyk Republic of Russia. D-loop of mitochondrial DNA gives an inside into the maternal lines of population of horses. I was stated, that maternal lines of 4 populations from different territories have their similarities, as well as differences. More investigations are in need to understand, if similarities can be explained by the same origin of the populations, or due to other horse breeds, involved into the breed’s genesis.

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Section: Resultsmentioning

confidence: 99%

Genetic diversity in maternal lines of cognate Mongolian horses of Mongolia, China and Russia

et al. 2021

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“…The polymorphisms present in the mitochondrial DNA D-loop sequence made it possible to distinguish the dam lines and identify the genetic diversity, as well as maternal ancestry and relationships, in many different horse breeds, like Arabian horses ( Khanshour & Cothran, 2013 ), Thoroughbreds ( Yoon et al, 2018 ), Cleveland Bay horses ( Dell et al, 2020 ), Tibetan horses ( Yang et al, 2018 ), Holstein horses ( Engel et al, 2021 ), Polish Draft horses ( Myćka et al, 2022 ), or Hucul horses ( Czerneková, Kott & Majzlík, 2013 ). The part of the mitochondrial DNA used in most diversity research is hypervariable region 1 (HVR1), localized in the D-loop.…”

Section: Introductionmentioning

confidence: 99%

Mitochondrial DNA and Y chromosome reveal the genetic structure of the native Polish Konik horse population

Musiał,

Radović,

Stefaniuk-Szmukier

et al. 2024

PeerJ

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Polish Konik remains one of the most important horse breeds in Poland. The primitive, native horses with a stocky body and mouse-like coat color are protected by a conservation program, while their Polish population consists of about 3,480 individuals, representing 16 dam and six sire lines. To define the population’s genetic structure, mitochondrial DNA and Y chromosome sequence variables were identified. The mtDNA whole hypervariable region analysis was carried out using the Sanger sequencing method on 233 Polish Koniks belonging to all dam lines, while the Y chromosome analysis was performed with the competitive allele-specific PCR genotyping method on 36 horses belonging to all sire lines. The analysis of the mtDNA hypervariable region detected 47 SNPs, which assigned all tested horses to 43 haplotypes. Most dam lines presented more than one haplotype; however, five dam lines were represented by only one haplotype. The haplotypes were classified into six (A, B, E, J, G, R) recognized mtDNA haplogroups, with most horses belonging to haplogroup A, common among Asian horse populations. Y chromosome analysis allocated Polish Koniks in the Crown group, condensing all modern horse breeds, and divided them into three haplotypes clustering with coldblood breeds (28 horses), warmblood breeds (two horses), and Duelmener Pony (six horses). The clustering of all Wicek sire line stallions with Duelmener horses may suggest a historical relationship between the breeds. Additionally, both mtDNA and Y chromosome sequence variability results indicate crossbreeding before the studbooks closure or irregularities in the pedigrees occurred before the DNA testing introduction.

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Use of mitochondrial sequencing to detect gene doping in horses via gene editing and somatic cell nuclear transfer

Maniego¹,

Pesko²,

Habershon‐Butcher

et al. 2022

Drug Testing and Analysis

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Gene editing and subsequent cloning techniques offer great potential not only in genetic disease correction in domestic animals but also in livestock production by enhancement of desirable traits. The existence of the technology, however, leaves it open to potential misuse in performance-led sports such as horseracing and other equestrian events. Recent advances in equine gene editing, regarding the generation of gene-edited embryos using CRISPR/Cas9 technology and somatic cell nuclear transfer, have highlighted the need to develop tools to detect potential prohibited use of the technology. One possible method involves the characterisation of the mitochondrial genome (which is not routinely preserved during cloning) and comparing it with the sequence of the registered dam. We present here our approach to whole-mitochondrial sequencing using tiled long-range PCR and next-generation sequencing. To determine whether the background mutation rate in the mitochondrial genome could potentially confound results, we sequenced 10 sets of dam and foal duos. We found variation between duos but none within duos, indicating that this method is feasible for future screening systems. Analysis of WGS data from over 100 Thoroughbred horses revealed wide variation in the mitochondria sequence within the breed, further displaying the utility of this approach.

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Mitochondrial D-loop sequence variation and maternal lineage in the endangered Cleveland Bay horse

Cited by 5 publications

References 21 publications

Genetic diversity in maternal lines of cognate Mongolian horses of Mongolia, China and Russia

Genetic diversity in maternal lines of cognate Mongolian horses of Mongolia, China and Russia

Mitochondrial DNA and Y chromosome reveal the genetic structure of the native Polish Konik horse population

Use of mitochondrial sequencing to detect gene doping in horses via gene editing and somatic cell nuclear transfer

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