Genetic diversity and population structure among six cattle breeds in South Africa using a whole genome SNP panel

Apis mellifera scutellata and Apis mellifera capensis, two native subspecies of western honey bees in the Republic of South Africa (RSA), are important to beekeepers in their native region because beekeepers use these bees for honey production and pollination purposes. Additionally, both bees are important invasive pests outside of their native ranges. Recently, whole mitogenome sequencing and single nucleotide polymorphisms were used to study their genetic diversity. To add to our knowledge of the molecular ecology of both bees, we tested the ability of microsatellites to be used as a tool to discriminate between A.m. capensis and A.m. scutellata. We analyzed the genetic variability and overall population structure of both bee subspecies and hybrids of the two by genotyping individuals collected from RSA (N = 813 bees from 75 apiaries) at 19 microsatellite DNA loci. Overall, populations averaged between 9.2 and 11.3 alleles per locus, with unbiased heterozygosity values ranging from 0.81 to 0.86 per population. Bayesian clustering analyses revealed two distinct evolutionary units, though the results did not match those of earlier morphometric and molecular analyses. This suggests that the microsatellites we tested were not sufficient for subspecies identification purposes, especially for Cape and hybrid bees. Nevertheless, the microsatellite data highlight the considerable genetic diversity within both populations and a larger-than-expected hybridization zone between the natural distributions of A.m. capensis and A.m. scutellata.

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Genetic diversity and population structure of six ethiopian cattle breeds from different geographical regions using high density single nucleotide polymorphisms

Livestock Science ◽

10.1016/j.livsci.2020.103979 ◽

2020 ◽

Vol 234 ◽

pp. 103979

Author(s):

Selam Meseret ◽

Yonatan A. Mekonnen ◽

Bertram Brenig ◽

Ekkehard Schütz ◽

Olivier Hanotte ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Single Nucleotide Polymorphisms ◽

High Density ◽

Nucleotide Polymorphisms ◽

Single Nucleotide ◽

Cattle Breeds ◽

Geographical Regions

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Genetic diversity and population structure of four cattle breeds raised in Turkey using microsatellite markers

Czech Journal of Animal Science ◽

10.17221/62/2019-cjas ◽

2019 ◽

Vol 64 (No. 10) ◽

pp. 411-419 ◽

Cited By ~ 2

Author(s):

Eymen Demir ◽

Murat Soner Balcioğlu

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Microsatellite Markers ◽

Factorial Correspondence Analysis ◽

Cattle Breeds ◽

Expected Heterozygosity ◽

Bottleneck Analysis ◽

Holstein Friesian ◽

Native Cattle ◽

Marker Level

In the present study, genetic diversity and population structure of Holstein Friesian and three native cattle breeds of Turkey including Turkish Grey Steppe, Eastern Anatolian Red and Anatolian Black were assessed. Totally 120 individuals of 4 breeds were genotyped using 20 microsatellite markers and 204 different alleles, of which 31 were private alleles, were detected. The average observed and expected heterozygosity values were 0.63 and 0.74, respectively. Observed heterozygosity at the marker level ranged from 0.30 (DRBP1) to 0.88 (ILSTS011), while expected heterozygosity ranged from 0.51 (INRABERN172) to 0.88 (SPS113). Inbreeding coefficient values for Turkish Grey Steppe, Eastern Anatolian Red, Anatolian Black and Holstein Friesian were 0.216, 0.202, 0.128 and 0.069, respectively. The lowest pairwise F<sub>ST</sub> value (0.030) was detected between Turkish Grey Steppe and Anatolian Black breeds, while the highest value (0.070) was detected between Turkish Grey Steppe and Holstein Friesian. Results of structure and factorial correspondence analysis revealed that Turkish native cattle breeds and Holstein Friesian were genetically different enough to separate the two breeds. Results of bottleneck analysis indicated heterozygosity deficiency in Turkish Grey Steppe (P < 0.05).

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