Thesis (M.Sc.) (Agriculture) --University of Limpopo, 2007 / The objectives of this study were to evaluate the effect of pre-weaning selection on estimates of genetic parameters for post-weaning average daily gain in Phases C (ADG-C) and D (ADG-D) and to estimate genetic relationships between average daily gain in the two phases. Performance records of the South African Angus cattle breed was used in the analysis. (Co)variance components and genetic parameters for weaning (WWT), AGD-C and ADG-D were estimated by REML procedures fitting three different models (Models 1, 2 and 3) that differed in how they integrated sequential selection in the analysis of post-weaning traits. Model 1 was a univariate model of WWT, ADG-C and ADG-D. Model 2 was a two trait model of WWT and either ADG-C or ADG-D. Model 3 was a three trait model of WWT, ADG-C and ADG-D. Estimates of heritability for ADG-C were 0.39±0.08, 0.42±0.06 and 0.44±0.01 from Model 1, 2 and 3 respectively. Corresponding estimates of heritability for ADG-D were 0.18±0.021, 0.19±0.021 and 0.21±0.02 respectively. An estimate of genetic correlation between ADG-C and ADG-D was 0.58± and it suggested that the two traits may not necessarily be under the same genetic control. Rank correlations for all bulls based on ADG-C estimated breeding values (EBV’s) were 0.92, 0.83 and 0.94 for Model 1 vs. Model 2, Model 1 vs. Model 3 and Model 2 vs. Model 3 respectively. Corresponding ADG-D EBV’s rank correlations were 0.88, 0.84 and 0.93. Rank correlations for top and bottom 1%, 5% and 10% were lower than those for all bulls in both ADG-C and ADG-D. Low rank correlations showed that the difference in magnitude of genetic parameters from different models was enough to alter bull rankings based on EBV’s of ADG-C and ADG-D. Hence it was concluded that inclusion of pre-weaning information in genetic analysis for post-weaning average daily gain is necessary to account for selection at weaning. / the THRIP (Technology and Human Resource for Industry Project) and NRF (National Research Foundation).

Thesis (MSc. (Animal breeding and genetics )) --University of Limpopo, 2006 / The objective of this study was to estimate genetic parameters for weekly body weight of feed intake of individually fed beef bulls at centralized testing stations in South Africa using random regression models (RRM). The model for cumulative feed intake included the fixed linear regression on third order orthogonal Legendre polynomials of the actual days on test (7, 14, 21, 28, 35, 42, 49, 56, 63, 70, 77 and 84 day) for starting age group and contemporary group effects. Random regressions on third order orthogonal Legendre polynomials were included for the additive genetic effect of the animal and the additional random effect of weaning-herd-year (WHY) and on fourth order for the additional random permanent environmental effect of the animal. The model for body weights included the fixed linear regression on fourth order orthogonal Legendre polynomials of the actual days on test for starting age group and contemporary group effects. Random regressions on fourth order orthogonal Legendre polynomials were included for additive genetic effects and additional uncorrelated random effects of the WHY and the permanent environment. The residual effects for both traits were assumed to be independently distributed with heterogeneous variance for each measurement period. Variance ratios for additive genetic, permanent environment and WHY for cumulative feed intake at different days on test ranged from 0.07 to 0.10, 0.53 to 0.77 and 0.14 to 0.37, respectively. Variance ratios for additive genetic, permanent environment and WHY for weekly body weights at different test days ranged from 0.26 to 0.29, 0.37 to 0.43 and 0.26 to 0.34, respectively. Estimates of genetic correlation among the same trait (body weight or feed intake) measured at different test days were generally high (>0.80) for any give test pair. The WHY had a significant contribution in variation of performance of bulls on test, despite the 28-day adjustment period. RRM provided the opportunity to study changes in genetic variability within the studied traits over time. Random Regression Models could be used in the National Genetic Evaluation of beef bulls at central performance testing stations in South Africa.

Ostrich (Struthio camelus) breeding is a well-developed industry in South Africa. However, successful genetic management has yet to be implemented. Parentage in colony breeding ostriches is unknown, where for a given offspring, a number of possible parents exist. Molecular markers have been extensively used in the livestock industry to resolve parentage issues and are only beginning to be utilized to address the issues of the ostrich industry. The aims of this investigation were to test known microsatellite markers developed for other ostrich subspecies in a South African Black ostrich population, and to further test these markers for their use in individual and parentage identification. DNA was extracted from venous blood obtained from two pair bred families and a colony of 97 individuals. Eleven polymorphic microsatellite markers were tested by PCR amplification of DNA samples followed by multiplexing on polyacrylamide gels to generate DNA fingerprints for each individual. Alleles were sized and quantified and used to create genotypes for each individual. Parentage analysis was performed using exclusion and likelihood methods. Pedigrees were constructed for the families by comparison of genotypes. Breeding statistics were calculated for the colony individuals. Three microsatellite markers did not amplify in this population and one marker was found to be monomorphic in this population. Four of the microsatellite markers that successfully amplified produced anonymous amplification products suggesting a second annealing site in the genome sequence of Blacks. All loci displayed low observed heterozygosities indicative of little genetic variation in this population. For the colony sample, four individuals were not assigned either parent and one female did not contribute any offspring. On average females produced 4.86 ± 2.71 fertile eggs during the sampling period with a coefficient of variation of 55.86%. A total of 79.2% of individuals were assigned paternity and 88.3% were assigned maternity. A greater number of loci are required to improve the power of parentage analysis within breeding flocks incorporating all eggs laid. / Thesis (M.Sc.)-University of KwaZulu-Natal, Pietermaritzburg, 2005.