Population structure and genetic trends for indigenous African beef cattle breeds in South Africa

Abin, Samuel Atanasio Mustafa; Theron, H.E.; Marle-Köster, E. van

doi:10.4314/sajas.v46i2.5

Cited by 18 publications

(20 citation statements)

References 19 publications

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“…There are, however, limited studies, which have been conducted on the genetic diversity of indigenous cattle breeds in the region. South Africa leads in this field owing to advanced sustainable programmes of recording for genetic improvement of cattle breeds [15,17,[20][21][22]. Few studies have been conducted in Zimbabwe [23], Mozambique [18,19], and Tanzania [16].…”

Section: Genetic Diversity Of Cattle Breeds In Southern Africamentioning

confidence: 99%

Strategies for Sustainable Use of Indigenous Cattle Genetic Resources in Southern Africa

et al. 2019

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Indigenous cattle breeds are the most important livestock species in the Southern African Development Community (SADC) region owing to their role in human food, nutrition, income, and social security. Despite the role of these breeds in the household and national economies, they are currently underutilised, their productivity remains low, and populations are faced with extinction. In addition, there are insufficient measures taken to secure their present and future value. The current review highlights strategies for sustainable use of indigenous cattle genetic resources in the region, including the use of novel production and marketing practices, women and youth empowerment, and development of the appropriate capacity building, legislative, and policy structures. At present, the lack of coordination among the different stakeholders still poses a challenge to the implementation of these strategies. To this end, partnerships, collaboration, and stakeholders’ participation are recommended to effectively implement strategies for sustainable use of indigenous cattle breeds.

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Section: Genetic Diversity Of Cattle Breeds In Southern Africamentioning

confidence: 99%

Strategies for Sustainable Use of Indigenous Cattle Genetic Resources in Southern Africa

et al. 2019

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“…The completeness of animal recording, which includes pedigree and performance recording, is advisable for all breeds to allow for accurate estimates of breeding values (Abin et al, 2016). Estimated breeding values (EBVs) is important to selecting animals for a range of traits that have direct impacts on productivity (Johnston et al, 2007).…”

Section: Estimated Breeding Valuementioning

confidence: 99%

Breeding value of sires based on offspring weaning weight as a recommendation for selecting Kebumen Ongole Grade cattle

Sumadi¹,

Fathoni²,

Maharani³

et al. 2017

J. Indonesian Trop. Anim. Agric.

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The objective of study was to estimate breeding value of sires of Kebumen Ongole grade cattle based on offsprings weaning weight. This research was carried out from August to December 2015 in Urut Sewu area, Kebumen. The calculation of genetic parameter estimation was heritability of weaning weight. The value of heritability was used to calculate the breeding value of sires based on offsprings weaning weight. Heritability was calculated using paternal half-sib correlation with the direct pattern variance analysis. Breeding Value (BV) of sire was calculated by absolute estimated breeding value. The materials used in this study included were data record during the last three years (2013-2015) consisted of 41 sires, 51 dams and 244 calves. Weaning weight data had been corrected based on age of dams, sex and weaning age of 120 days. The results showed that the heritability value of weaning weight was included in high category (0.36 ± 0.21). The highest BV was KJ.J608 (49.76) with a ratio of 231.45%. The results of this study were expected to be the basis recommendation for selecting sires in Kebumen.

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Section: Introductionmentioning

confidence: 99%

“…Indigenous breed of SA have made major contributions to livestock production because of their ability to adapt and produce in different SA production systems (Abin et al, 2016). These breeds have been participating in animal recording programmes with an average complete pedigree recording varying from 88.5% for the Nguni to 92.5% for the Afrikaner (Abin et al, 2016). The availability of the pedigree records have been essential for genetic evaluation using BLUP model in determining the selection efficiency and actual genetic change (Mostert, 2007; Groeneveld et al, 2009).…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide SNP Discovery in Indigenous Cattle Breeds of South Africa

et al. 2019

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Single nucleotide polymorphism arrays have created new possibilities for performing genome-wide studies to detect genomic regions harboring sequence variants that affect complex traits. However, the majority of validated SNPs for which allele frequencies have been estimated are limited primarily to European breeds. The objective of this study was to perform SNP discovery in three South African indigenous breeds (Afrikaner, Drakensberger, and Nguni) using whole genome sequencing. DNA was extracted from blood and hair samples, quantified and prepared at 50 ng/μl concentration for sequencing at the Agricultural Research Council Biotechnology Platform using an Illumina HiSeq 2500. The fastq files were used to call the variants using the Genome Analysis Tool Kit. A total of 1,678,360 were identified as novel using Run 6 of 1000 Bull Genomes Project. Annotation of the identified variants classified them into functional categories. Within the coding regions, about 30% of the SNPs were non-synonymous substitutions that encode for alternate amino acids. The study of distribution of SNP across the genome identified regions showing notable differences in the densities of SNPs among the breeds and highlighted many regions of functional significance. Gene ontology terms identified genes such as MLANA , SYT10 , and CDC42EP5 that have been associated with coat color in mouse, and ADAMS3, DNAJC3 , and PAG5 genes have been associated with fertility in cattle. Further analysis of the variants detected 688 candidate selective sweeps (ZH p Z-scores ≤ -4) across all three breeds, of which 223 regions were assigned as being putative selective sweeps (ZH p scores ≤-5). We also identified 96 regions with extremely low ZH p Z-scores (≤-6) in Afrikaner and Nguni. Genes such as KIT and MITF that have been associated with skin pigmentation in cattle and CACNA1C , which has been associated with biopolar disorder in human, were identified in these regions. This study provides the first analysis of sequence data to discover SNPs in indigenous South African cattle breeds. The information will play an important role in our efforts to understand the genetic history of our cattle and in designing appropriate breed improvement programmes.

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Population structure and genetic trends for indigenous African beef cattle breeds in South Africa

Cited by 18 publications

References 19 publications

Strategies for Sustainable Use of Indigenous Cattle Genetic Resources in Southern Africa

Strategies for Sustainable Use of Indigenous Cattle Genetic Resources in Southern Africa

Breeding value of sires based on offspring weaning weight as a recommendation for selecting Kebumen Ongole Grade cattle

Genome-Wide SNP Discovery in Indigenous Cattle Breeds of South Africa

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