Estimation of population differentiation using pedigree and molecular data in Black Slavonian pig

Gvozdanović, Kristina; Škorput, Dubravko; Kušec, Ivona Djurkin; Salajpal, Krešimir; Kušec, Goran

doi:10.15414/afz.2020.23.mi-fpap.241-249

Cited by 4 publications

(1 citation statement)

References 37 publications

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“…Although the F ST range in this study is quite broad, with some herds reaching up to 0.35, the average F ST coefficient across herds is not high (less than 0.047), which is significantly lower than 0.05 (p-value < 0.05). This F ST value is higher than the F ST of 0.006 observed in the study of black Slovenian pigs [36] but lower than the inter-herd F ST (F ST = 0.065) within the same commercial breeds according to Snegin et al (2021) [30]. It means that there are some divergent herds, but overall, there is a low genetic differentiation between herds in the three breeds analysed.…”

Section: Discussioncontrasting

confidence: 53%

Population Subdivision and Migration Assessment of Mangalica Pig Breeds Based on Pedigree Analysis

Nguyen,

Kövér,

Tóth

et al. 2024

Animals

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In conserving the genetic diversity of domestic animal breeds, strategies that emphasise between-breed diversity may not be optimal, as they neglect within-breed variation. The aim of the present study was to assess the extent of population subdivision in three Mangalica pig breeds and the contribution of migration to their substructure. Wright’s FST coefficient was calculated based on genealogical data with breeding animals born between 1981 and 2023, with three colour variants (Blonde, Swallow-Belly and Red). These Wright’s FST coefficients were analysed using multidimensional scaling to reveal the population substructure. The average FST coefficient was 0.04 for the Blonde breed and 0.047 for the Swallow-Belly and Red Mangalica breeds, while these parameters were lower in the active herds at 0.03 and 0.04, respectively. The migration of individuals between herds was 61.63% for the Blonde breed and 75.53% and 63.64% for the Swallow-Belly and Red Magalica breeds, respectively. No population substructure was observed in any of the Mangalica breeds, which can be explained by the extensive migration between herds.

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Section: Discussioncontrasting

confidence: 53%

Population Subdivision and Migration Assessment of Mangalica Pig Breeds Based on Pedigree Analysis

Nguyen,

Kövér,

Tóth

et al. 2024

Animals

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Analysis of genetic variability and population structure of the Mangalica pig breed using pedigree data

et al. 2023

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Genetic diversity and population structure of six autochthonous pig breeds from Croatia, Serbia, and Slovenia

et al. 2022

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Background The importance of local breeds as genetic reservoirs of valuable genetic variation is well established. Pig breeding in Central and South-Eastern Europe has a long tradition that led to the formation of several local pig breeds. In the present study, genetic diversity parameters were analysed in six autochthonous pig breeds from Slovenia, Croatia and Serbia (Banija spotted, Black Slavonian, Turopolje pig, Swallow-bellied Mangalitsa, Moravka and Krskopolje pig). Animals from each of these breeds were genotyped using microsatellites and single nucleotide polymorphisms (SNPs). The results obtained with these two marker systems and those based on pedigree data were compared. In addition, we estimated inbreeding levels based on the distribution of runs of homozygosity (ROH) and identified genomic regions under selection pressure using ROH islands and the integrated haplotype score (iHS). Results The lowest heterozygosity values calculated from microsatellite and SNP data were observed in the Turopolje pig. The observed heterozygosity was higher than the expected heterozygosity in the Black Slavonian, Moravka and Turopolje pig. Both types of markers allowed us to distinguish clusters of individuals belonging to each breed. The analysis of admixture between breeds revealed potential gene flow between the Mangalitsa and Moravka, and between the Mangalitsa and Black Slavonian, but no introgression events were detected in the Banija spotted and Turopolje pig. The distribution of ROH across the genome was not uniform. Analysis of the ROH islands identified genomic regions with an extremely high frequency of shared ROH within the Swallow-bellied Mangalitsa, which harboured genes associated with cholesterol biosynthesis, fatty acid metabolism and daily weight gain. The iHS approach to detect signatures of selection revealed candidate regions containing genes with potential roles in reproduction traits and disease resistance. Conclusions Based on the estimation of population parameters obtained from three data sets, we showed the existence of relationships among the six pig breeds analysed here. Analysis of the distribution of ROH allowed us to estimate the level of inbreeding and the extent of homozygous regions in these breeds. The iHS analysis revealed genomic regions potentially associated with phenotypic traits and allowed the detection of genomic regions under selection pressure.

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Estimation of population differentiation using pedigree and molecular data in Black Slavonian pig

Cited by 4 publications

References 37 publications

Population Subdivision and Migration Assessment of Mangalica Pig Breeds Based on Pedigree Analysis

Population Subdivision and Migration Assessment of Mangalica Pig Breeds Based on Pedigree Analysis

Analysis of genetic variability and population structure of the Mangalica pig breed using pedigree data

Genetic diversity and population structure of six autochthonous pig breeds from Croatia, Serbia, and Slovenia

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