Dataset Information

Genetic diversity and relationship among indigenous Turkish Karayaka sheep subpopulations.

ABSTRACT: The Karayaka is the most populous sheep breed in the Black Sea region of Turkey. In the present study, we investigated the intra- and inter-population genetic relationships among indigenous Karayaka sheep subpopulations. Nine microsatellites were genotyped for 64 individuals from Samsun, Ordu, Giresun and Tokat provinces. The average number of alleles ( Na ), allelic richness ( Ar ), observed heterozygosity ( Ho ), expected heterozygosity ( He ), polymorphism information content (PIC) and inbreeding coefficient ( FIS ) for all subpopulations were estimated as Na=16.44 , Ar=9.887 , Ho=0.303 , He=0.886 , PIC=0.866 and FIS=0.630 , respectively. The observed and expected heterozygosity ranged from 0.171 (Giresun) to 0.376 (Ordu) and 0.757 (Samsun) to 0.845 (Ordu), respectively. It was determined that a 10.5?% of total genetic variation ( FIT=66.9 ?%) in Karayaka sheep corresponded to genetic differences among subpopulations ( FST ), whereas 63.0?% was explained by genetic difference among individuals ( FIS ). This study gives the first evidence about genetic relationships of Karayaka subpopulations. The results show that Karayaka sheep subpopulations are genetically different from each other. These findings revealed that the Karayaka breed has discrete subpopulations and should be taken into consideration when preparing conservation programs and future breeding strategies.

SUBMITTER: Kirikci K

PROVIDER: S-EPMC7405648 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature

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Genetic diversity and relationship among indigenous Turkish Karayaka sheep subpopulations.

Kirikci Koray K Cam M Akif MA Mercan Levent L

Archives animal breeding 20200730 2

The Karayaka is the most populous sheep breed in the Black Sea region of Turkey. In the present study, we investigated the intra- and inter-population genetic relationships among indigenous Karayaka sheep subpopulations. Nine microsatellites were genotyped for 64 individuals from Samsun, Ordu, Giresun and Tokat provinces. The average number of alleles ( N a ), allelic richness ( A r ), observed heterozygosity ( H o ), expected heterozygosity ( H e ), polymorphism information content ...[more]

PMID: 32775612

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Project description:Objective:An experiment was conducted to evaluate genetic diversity of 26 Chinese indigenous goats by 30 microsatellite markers, and then to define conservation priorities to set up the protection programs according to the weight given to within- and between-breed genetic diversity. Methods:Twenty-six representative populations of Chinese indigenous goats, 1351 total, were sampled from different geographic regions of China. Within-breed genetic diversity and marker polymorphism were estimated calculating the mean number of alleles (MNA), observed heterozygosities (HO), expected heterozygosities (He), fixation index (FIS), effective number of alleles (NE) and allelic richness (Rt). Conservation priorities were analyzed by statistical methods. Results:A relatively high level of genetic diversity was found in twenty-four populations, the exceptions were in the Daiyun and Fuqing goat populations. Within-breed kinship coefficients matrix identified seven highly inbred breeds which should be concerned. Of these, six breeds will get a negative contribution to heterozygosity when the method was based on proportional contribution to heterozygosity. Based on Weitzman or Piyasatian and Kinghorn methods, the breeds distant from others i.e. Inner Mongolia Cashmere goat, Chengdu Brown goat and Leizhou goat will obtain a high ranking. Evidence from Caballero and Toro and Fabuel et al. method prioritized Jining Gray goat, Liaoning Cashmere goat and Inner Mongolia Cashmere goat, that in agreement with results from Kinship-based methods. Conclusion:Conservation priorities had planned according to multiple methods. Our results suggest Inner Mongolia Cashmere goat (most methods), Jining Gray goat and Liaoning Cashmere goat (high contribution to heterozygosity and total diversity) should be prioritized based on most methods. Furthermore, Daiyun goat and Shannan White goat also should be prioritized based on consideration of effective population size. However, if one breed could survive in changing conditions all the time, the straightforward approach is to increase its utilization and attraction for production via mining breed germplasm characteristic.

Project description:ObjectiveEuropean pigs have been imported to improve the economically important traits of Thai pigs by crossbreeding and was finally completely replaced. Currently Thai indigenous pigs are particularly kept in a small population. Therefore, indigenous pigs risk losing their genetic diversity and identity. Thus, this study was conducted to perform large-scale genetic diversity and phylogenetic analyses on the many pig breeds available in Thailand.MethodsGenetic diversity and phylogenetics analyses of 222 pigs belonging to Thai native pigs (TNP), Thai wild boars (TWB), European commercial pigs, commercial crossbred pigs, and Chinese indigenous pigs were investigated by genotyping using 26 microsatellite markers.ResultsThe results showed that Thai pig populations had a high genetic diversity with mean total (TNA) and effective (Ne) number of alleles of 14.59 and 3.71, respectively, and expected heterozygosity (He) across loci (0.710). The polymorphic information content (PIC) per locus ranged between 0.651 and 0.914 leading to an average value above all loci of 0.789, and private alleles were found in six populations. The higher He compared to Ho in TNP, TWB, and the commercial pigs indicated some inbreeding within a population. The Nei's genetic distance, mean FST estimates, neighbour-joining tree of populations and individual, as well as multidimensional analysis indicated close genetic relationship between Thai indigenous pigs and some Chinese pigs, and they are distinctly different from European pigs.ConclusionOur study reveals a close genetic relationship between Thai native pigs and Chinese pigs. The genetic introgression from European breeds is found in some Thai native pig populations, and signs of genetic erosion are shown. Private alleles found in this study should be taken into consideration for the breeding program. The genetic information from this study will be a benefit for both conservation and utilization of Thai pig genetic resources.

Dataset Information

Genetic diversity and relationship among indigenous Turkish Karayaka sheep subpopulations.

Publications

Genetic diversity and relationship among indigenous Turkish Karayaka sheep subpopulations.

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