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Astuti PK, Gavojdian D, Ilie DE, Wanjala G, Monori I, Bagi Z, Kusza S. Genetic polymorphism in European and African sheep breeds reared in Hungary based on 48 SNPs associated with resistance to gastrointestinal parasite infection using KASP-PCR technique. Trop Anim Health Prod 2023; 55:197. [PMID: 37160635 PMCID: PMC10169887 DOI: 10.1007/s11250-023-03609-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/20/2023] [Accepted: 04/27/2023] [Indexed: 05/11/2023]
Abstract
This pilot study used an alternative and economically efficient technique, the Kompetitive Allele-Specific Polymerase Chain Reaction (KASP-PCR) to examine 48 SNPs from 11 parasite-resistance genes found on 8 chromosomes in 110 animals from five sheep breeds reared in Hungary; Hungarian Tsigai, White Dorper, Dorper, Ile de France, and Hungarian Merino. Allele and genotype frequencies, fixation index, observed heterozygosity, expected heterozygosity, F statistic, and their relationship with the Hardy-Weinberg equilibrium (WHE) and the polymorphic information content (PIC) were determined, followed by principal component analysis (PCA). As much as 32 SNPs out of the 48 initially studied were successfully genotyped. A total of 9 SNPs, 4 SNPs in TLR5, 1 SNP in TLR8, and 4 SNPs in TLR2 genes, were polymorphic. The variable genotype and allele frequency of the TLRs gene indicated genetic variability among the studied sheep breeds, with the Hungarian Merino exhibiting the most polymorphisms, while Dorper was the population with the most SNPs departing from the HWE. According to the PIC value, the rs430457884-TLR2, rs55631273-TLR2, and rs416833129-TLR5 were found to be informative in detecting polymorphisms among individuals within the populations, whereas the rs429546187-TLR5 and rs424975389-TLR5 were found to have a significant influence in clustering the population studied. This study reported a moderate level of genetic variability and that a low to moderate within-breed diversity was maintained in the studied populations.
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Affiliation(s)
- Putri Kusuma Astuti
- Centre for Agricultural Genomics and Biotechnology, University of Debrecen, Debrecen, 4032, Hungary
- Doctoral School of Animal Science, University of Debrecen, Debrecen, 4032, Hungary
- Department of Animal Breeding and Reproduction, Faculty of Animal Science, Universitas Gadjah Mada, Yogyakarta, 55281, Indonesia
| | - Dinu Gavojdian
- Research and Development Institute for Bovine Balotesti, 77015, Balotesti, Ilfov, Romania
| | | | - George Wanjala
- Centre for Agricultural Genomics and Biotechnology, University of Debrecen, Debrecen, 4032, Hungary
- Doctoral School of Animal Science, University of Debrecen, Debrecen, 4032, Hungary
| | | | - Zoltán Bagi
- Centre for Agricultural Genomics and Biotechnology, University of Debrecen, Debrecen, 4032, Hungary
| | - Szilvia Kusza
- Centre for Agricultural Genomics and Biotechnology, University of Debrecen, Debrecen, 4032, Hungary.
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Zsolnai A, Egerszegi I, Rózsa L, Anton I. Genetic status of lowland-type Racka sheep colour variants. Animal 2020; 15:100080. [PMID: 33573966 DOI: 10.1016/j.animal.2020.100080] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Revised: 09/09/2020] [Accepted: 09/15/2020] [Indexed: 11/17/2022] Open
Abstract
Lowland-type Racka is an indigenous sheep breed that beside Hungarian Grey cattle and Mangalitza pig is one of the national symbols of Hungary. However, the genetic description of Racka sheep has not yet been conducted based on whole-genome screening. By using the Geneseek Ovine SNP50 BeadChip, we have sampled the genome of 126 Black and 128 White Racka sheep. For comparative purposes, we used 134 Hungarian Merinos and further 3345 animals from 81 different breeds have been included from an available database. Performance of a multidimensional scaling plot showed that White and Black Rackas represent well-separated groups among other sheep breeds and clustered separately from each other. However, the number and total length of Runs of Homozygosity was similar to other sheep breeds, except Soay. The inbreeding coefficients (method-of-moments relatedness F coefficient) of Black and White Racka were 0.147 and 0.133, respectively. Based on multidimensional scaling and admixture analyses and on comparisons of genetic distances of the investigated 84 populations, we suggest considering the colour variants of Racka as genetically differentiated breeds. The most differentiated markers between Black and White Racka highlight several candidate genes including 5-Hydroxytryptamine Receptor 5A, Insulin Induced Gene 1, Cyclin Dependent Kinase 5 and Melanocortin 1 Receptor. The results of this study help the recognition of Racka as a unique genetic resource among sheep and pave the way of application of genome screens to guide the resolution of questions arising among breeders.
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Affiliation(s)
- A Zsolnai
- NAIK-Research Institute for Animal Breeding, Nutrition and Food Science, Herceghalom, Hungary; National Centre for Biodivertsity and Gene Conservation, Gödöllő, Hungary.
| | | | - L Rózsa
- NAIK-Research Institute for Animal Breeding, Nutrition and Food Science, Herceghalom, Hungary
| | - I Anton
- NAIK-Research Institute for Animal Breeding, Nutrition and Food Science, Herceghalom, Hungary
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Gáspárdy A, Holly V, Zenke P, Maróti-Agóts Á, Sáfár L, Bali Papp Á, Kovács E. The response of prion genic variation to selection for scrapie resistance in Hungarian indigenous sheep breeds. Acta Vet Hung 2018; 66:562-572. [PMID: 30580535 DOI: 10.1556/004.2018.050] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
The authors studied the present status of Hungarian indigenous sheep breeds based on the genetic background of scrapie resistance. The aim of this investigation was to estimate the relative frequency of prion haplotypes, genotypes and risk categories, as well as to reveal the efficiency of the scrapie eradication programme achieved over the last decade. A novel approach in the characterisation of prion by using its genic variation was also implemented. The authors established that the proportion of deleterious sites (%) can be a useful indicator of the eradication programme. Based on a large sample size, it was confirmed that the scrapie resistance of the Cikta breed is low, and the classification of this breed according to risk category has not improved. However, the frequent genotype ARQ and risk category 3 can also be considered characteristic of the breed. The careful use of these genotypes is permitted and will contribute to the maintenance of breed diversity. The response of prion genic variation to selection for scrapie resistance in the other breeds (Tsigai, Milking Tsigai, White Racka, Black Racka and Gyimes Racka) was definitely successful.
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Affiliation(s)
- András Gáspárdy
- 1 Department for Animal Breeding, Nutrition and Laboratory Animal Science, University of Veterinary Medicine, Istváu. 2, H-1078 Budapest, Hungary
| | - Viktoria Holly
- 1 Department for Animal Breeding, Nutrition and Laboratory Animal Science, University of Veterinary Medicine, Istváu. 2, H-1078 Budapest, Hungary
| | - Petra Zenke
- 1 Department for Animal Breeding, Nutrition and Laboratory Animal Science, University of Veterinary Medicine, Istváu. 2, H-1078 Budapest, Hungary
| | - Ákos Maróti-Agóts
- 1 Department for Animal Breeding, Nutrition and Laboratory Animal Science, University of Veterinary Medicine, Istváu. 2, H-1078 Budapest, Hungary
| | - László Sáfár
- 3 Hungarian Sheep and Goat Breeders’ Association, Budapest, Hungary
| | - Ágnes Bali Papp
- 2 Department of Animal Science, Széenyi Istvá University, Mosonmagyaróvár, Hungary
| | - Endre Kovács
- 1 Department for Animal Breeding, Nutrition and Laboratory Animal Science, University of Veterinary Medicine, Istváu. 2, H-1078 Budapest, Hungary
- 2 Department of Animal Science, Széenyi Istvá University, Mosonmagyaróvár, Hungary
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Rejduch B, Knapik J, Piestrzyńska-Kajtoch A, Kozubska-Sobocińska A, Krupiński J. Frequency of genotypes in the PrP prion protein gene locus in the Polish sheep population. Acta Vet Hung 2009; 57:39-49. [PMID: 19457772 DOI: 10.1556/avet.57.2009.1.4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Scrapie is an invariably fatal transmissible neurodegenerative disease of sheep, goats and moufflons, characterised by ataxia, lower body weight and changes in behaviour. The aim of this study was to determine the genotype distribution at codons 136, 154 and 171 of the PrP locus in sheep bred in Poland. The genotypes of 801 sheep representing 10 different breeds and crossbreds were analysed using real-time PCR allele discrimination method. The combination of point mutations of the three codons (136, 154 and 171) created twelve different genotypes in the PrP locus classified into five categories of risk. The highest frequency for the ARR/ARR genotype was characteristic of the Pogórze and Berrichon du Cher breeds (72.22% and 63:25%, respectively). In the Romanov breed (1.52%) and in crossbred sheep (2.61%) the VRQ/VRQ genotype was observed.
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Affiliation(s)
- Barbara Rejduch
- 1 National Research Institute of Animal Production 32-083 Balice n. Kraków Poland
| | - Jan Knapik
- 1 National Research Institute of Animal Production 32-083 Balice n. Kraków Poland
| | | | | | - Jędrzej Krupiński
- 1 National Research Institute of Animal Production 32-083 Balice n. Kraków Poland
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