Genetic Characterization and Polymorphisms for Parentage Testing of the Jeju Horse using 20 Microsatellite Loci

Choi, Sung-Kyoon; Cho, Chang-Yeon; Yeon, Seong–Heum; Cho, Byung-Wook; Cho, Gil‐Jae

doi:10.1292/jvms.70.1111

Cited by 14 publications

(15 citation statements)

References 12 publications

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“…Although several studies [2, 8, 9, 12] reported population studies on the genetic pedigree structure of several horse breeds, only limited information is available about data needed in casework such as the power of identity and breed assignment [4, 16]. In this study, allele M and Q of ASB23 marker, G of HMS2 marker, H and L of HTG6 marker, L of HTG7 marker, E of LEX3 marker confirmed as the specific alleles unique to Halla horses.…”

Section: Resultsmentioning

confidence: 99%

Genetic diversity of Halla horses using microsatellite markers

et al. 2016

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BackgroundCurrently about 26,000 horses are breeding in Korea and 57.2% (14,776 horses) of them are breeding in Jeju island. According to the statistics published in 2010, the horses breeding in Jeju island are subdivided into Jeju horse (6.1%), Thoroughbred (18.8%) and Halla horse (75.1%). Halla horses are defined as a crossbreed between Jeju and Thoroughbred horses and are used for horse racing, horse riding and horse meat production. However, little research has been conducted on Halla horses because of the perception of crossbreed and people’s weighted interest toward Jeju horses.MethodUsing 17 Microsatellite (MS) Markers recommended by International Society for Animal Genetics (ISAG), genomic DNAs were extracted from the hair roots of 3,880 Halla horses breeding in Korea and genetic diversity was identified by genotyping after PCR was performed.Results and conclusionIn average, 10.41 alleles (from 6 alleles in HTG7 to 17 alleles in ASB17) were identified after the analysis using 17 MS Markers. The mean value of Hobs was 0.749 with a range from 0.612(HMS1) to 0.857(ASB2). Also, it was found that Hexp and PIC values were lowest in HMS1 (0.607 and 0.548, respectively), and highest in LEX3(0.859 and 0.843, respectively), and the mean value of Hexp was 0.760 and that of PIC was 0.728. 17 MS markers used in this studies were considered as appropriate markers for the polymorphism analysis of Halla horses. The frequency for the appearance of identical individuals was 5.90 × 10−20 when assumed as random mating population and when assumed as half-sib and full-sib population, frequencies were 4.08 × 10−15 and 3.56 × 10−8, respectively. Based on these results, the 17 MS markers can be used adequately for the Individual Identification and Parentage Verification of Halla horses. Remarkably, allele M and Q of ASB23 marker, G of HMS2 marker, H and L of HTG6 marker, L of HTG7 marker, E of LEX3 marker were the specific alleles unique to Halla horses.Electronic supplementary materialThe online version of this article (doi:10.1186/s40781-016-0120-6) contains supplementary material, which is available to authorized users.

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Section: Resultsmentioning

confidence: 99%

Genetic diversity of Halla horses using microsatellite markers

et al. 2016

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“…Therefore, some efforts have made by breeder associations or governments to conserve native horses based on scientific ways [4,13,27]. Similarly, we started to work with the Kiso Horse Conservation Association to create a management program for conservation, and studied the genetic diversity of the Kiso horse in this study.…”

Section: Discussionmentioning

confidence: 99%

Genetic Characterization of the Endangered Kiso Horse Using 31 Microsatellite DNAs

et al. 2012

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ABSTRACT. In order to contribute to conservation of the endangered Kiso horse, we clarified their genetic information using 31 microsatellite DNAs, and genotyped 125 horses, 83% of the existing breed. First, we clarified the current status of the horses. The horses were confirmed to have experienced rapid loss of population causing a bottleneck, and their effective population size was much smaller than their census size. Moreover, the number of alleles (6.3), observed heterozygosity (0.674), and expected heterozygosity (0.662) were in the same range as other endangered horses all over the world. Therefore, although their inbreeding level was not so severe (F is : -0.017), the Kiso horse is surely one of the endangered. Second, we obtained genetic information of individuals. This information allowed us to understand the genetic distance of individuals, and might help in development of a reproductive strategy concerning the genetic distance between the mating pairs. Moreover, there appeared to be 4 subpopulations of Kiso horse, and this result was in good agreement with their historical background. Third, we confirmed that the parentage test for identification using the 31 microsatellite DNAs was highly reliable (probability of exclusion: 0.999999993). This identification increases the reliability of stud certification, and is also helpful for effective management. Understanding the genetic diversity within the population and the relationships among individuals is important to ensuring effective management for maintenance of genetic variation, and this study may help in conservation of the endangered Kiso horse.

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“…A second step in this process is the collection of large-scale population data, similar to the standard operating procedure in humans and recently described for other non-human species, such as cats (Menotti-Raymond et al 2005;Coomber et al 2007), dogs (Eichmann et al 2004;Hellmann et al 2006;Kanthaswamy et al 2009;Van Asch et al 2009), cattle (Glowatzki-Mullis et al 1995Peelman et al 1998;Van de Goor et al 2011) and bison (Schnabel et al 2000). So far, only limited population data for the equine STRs are available (Choi et al 2008;Zabek & Fornal 2009).…”

Section: Introductionmentioning

confidence: 99%

Population studies of 17 equine STR for forensic and phylogenetic analysis

Goor¹,

Haeringen²,

Lenstra

2011

Animal Genetics

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As a consequence of the close integration of horses into human society, equine DNA analysis has become relevant for forensic purposes. However, the information content of the equine Short Tandem Repeat (STR) loci commonly used for the identification or paternity testing has so far not been fully characterized. Population studies were performed for 17 polymorphic STR loci (AHT4, AHT5, ASB2, ASB17, ASB23, CA425, HMS1, HMS2, HMS3, HMS6, HMS7, HTG4, HTG6, HTG7, HTG10, LEX3 and VHL20) including 8641 horses representing 35 populations. The power of parental exclusion, polymorphic information content, expected and observed heterozygosity and probability of identity were calculated, showing that the set of 17 STRs has sufficient discriminating power for forensic analysis in almost all breeds. We also explored the reliability of individual assignment tests in identifying the correct breeds of origin for unknown samples. The overall proportion of individuals correctly assigned to a population was 97.2%. Finally, we demonstrate the phylogenetic signal of the 17 STR. We found three clusters of related breeds: (i) the cold-blooded draught breeds Haflinger, Dutch draft and Friesian; (ii) the pony breeds Shetland and Miniature horse with the Falabella, Appaloosa and Icelandic; and (iii) The Warmblood riding breeds, together with the hot-blooded Standard-bred, Thoroughbred and Arabian.

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Genetic Characterization and Polymorphisms for Parentage Testing of the Jeju Horse using 20 Microsatellite Loci

Cited by 14 publications

References 12 publications

Genetic diversity of Halla horses using microsatellite markers

Genetic diversity of Halla horses using microsatellite markers

Genetic Characterization of the Endangered Kiso Horse Using 31 Microsatellite DNAs

Population studies of 17 equine STR for forensic and phylogenetic analysis

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