Thesis (M.Sc. (Animal Production)) -- University of Limpopo, 2021 / Initial analysis was conducted to test significance of dam parity, litter size, birth season, birth year, kidding season and kidding age on lactation milking performance of various milk production traits and components, as well as to calculate phenotypic correlation between dam kidding age and these traits. Analysis of variance (ANOVA) was carried out using 16 407 non-pedigreed lactation records to test for non-genetic significant effects, while Pearson’s correlation coefficients were calculated using Minitab software. The second analysis included 2 960 fully pedigreed lactation records that were analysed to estimate (co) variance components and direct heritability values for milk production and component traits applying uni-variate linear analysis, as well as genetic and phenotypic correlations between them using bi-variate linear analysis. Both analyses used secondary data of all grade and registered Saanen goats participating in the official Milk Recording and Performance Testing Scheme of the Animal Improvement Institute of the Agricultural Research Council of South Africa. From ANOVA, dam parity and year of birth significantly influenced (p < 0.05) all traits investigated, with better lactation milking performances estimated in 3rd parity groups and animals born during recent years respectively. Birth season only affected (p < 0.05) MY, urea and NR with animals born during spring season yielding a better lactation milking performance. Kidding season influenced (p < 0.05) all traits except PY and urea, with highest lactation milking performance estimated in animals kidding during spring season. All traits except FY and PY were significantly influenced (p < 0.05) by litter size, with multiple litter kidding groups yielding highest, while kidding age effects were not significant (p > 0.05) on NR, SCCI and urea. Pearson’s correlation estimations showed negative associations between kidding age (rp = -0.30, -0.004, - 0.057, -0.051, -0.015, -0.265 and -0.271 for urea, MY, FY, PY, LY, NR and P respectively) except for SCCI (rp= 0.189). From uni-variate and bi-variate linear analyses, direct heritability estimates ranged from moderate to high (h2 = 0.42 ± 0.03, 0.38 ± 0.03, 0.39 ± 0.03, 0.22 ± 0.03, 0.40 ± 0.03, 0.38 ± 0.03, 0.28 ± 0.05 and 0.20 ± 0.03 for MY, FY, PY, LY, Urea, NR, P and SCCI respectively), with MY having highest value. Genetic correlation estimates between MY and traits such as FY, PY, urea, NR and P were all high and positive indicating favorable correlated responses (rg =0.97, 0.94, 0.95, 0.99 and 0.74 respectively). Furthermore, phenotypic correlation estimates between MY and these traits except P (rp = 0.33) were close to their respective genetic xv correlation values (rp=0.95, 0.91, 0.92 and 0.92 for FY, PY, urea and NR respectively). Genetic correlation between MY and LY, and between MY and SCCI were not significant (p > 0.05), while phenotypic correlations between MY and these traits were significant (p <0.05), positive and low (rp=0.03 and 0.02 for LY and SCCI respectively). It was concluded that non-genetic factors determine to what extent the genetic potential of an animal is expressed thus, their inclusion in genetic evaluation models is crucial. Selecting for increased MY would increase herd lactation NR and improve lactation milking performance of other traits such as FY, PY and P. Selection against SCCI needs to be applied more in the population to avoid losses attributed to intra mammary infections / National Research Foundation (NRF)

Thesis (MSc. (Animal Production)) -- University of Limpopo, 2018 / A study was done to determine the effect of Acacia (A.) karroo, A. tortilis or A. nilotica leaf meal inclusion in a diet on methane emission and productivity of yearling male Boer goats fed a basal diet of Avena sativa hay. The first part of the study was conducted to determine and compare nutrient contents and tannin levels of A. karroo, A. tortilis and A. nilotica leaf meals and Avena sativa hay in a completely randomised design. The diets means were compared using Fisher’s least significant difference at the 5 % level of probability. The three Acacia species had higher (P<0.05) crude protein contents compared to Avena sativa hay, ranging from 12.42 to 14.49 %. No tannins were detected in Avena sativa hay. Among Acacia species, A. nilotica leaves had higher (P<0.05) total phenolic and total tannin contents than A. karroo and A. tortilis leaves, the latter being similar (P>0.05). All three Acacia species had similar (P>0.05) contents of condensed tannins, ranging from 1.49 to 1.76 %. However, only A. nilotica leaves had hydrolysable tannins of 128 mg/g. The second part of the study was conducted to determine the effect of A. karroo, A. tortilis or A. nilotica leaf meal inclusion level on diet intake and digestibility, methane emission, productivity and blood profiles of yearling male Boer goats. A total of three experiments were conducted and different goats were used in each experiment. A grand total of thirty six (twelve per experiment) yearling male Boer goats with initial mean live weights of 23 ± 2 kg (experiment 1), 23 ± 2 kg (experiment 2) and 23 ± 2 kg (experiment 3) were used in 21-day experiments. The goats were randomly assigned to four dietary treatments, each containing A. karroo, A. tortilis or A. nilotica leaf meal inclusion levels at 10, 15, 20 and 30 % with Avena sativa hay as a basal diet. Each goat was housed in well-ventilated individual metabolic pen. The diets were replicated three times. The data collected were subjected to analysis of covariance and analysis of variance in a completely randomized design using SAS. Differences were separated at 5 % level of probability. Additionally, regression equations were used to determine the relationships and responses in optimal diet intake and digestibility, methane emission, productivity and blood profiles of yearling male Boer goats to differing inclusion levels of A. karroo, A. tortilis and A. nilotica leaf meal. v Experiment 1 involved feeding different levels of A. karroo leaf meal inclusion to yearling male Boer goats fed Avena sativa hay as a basal diet. Results of methane emission before and during the experiment indicated that inclusion of A. karroo leaf meal in the diets of goats reduced (P<0.05) methane emission. Similarly, some of the blood parameters before and after experiment were affected (P<0.05) by inclusion of A. karroo leaf meal. However, A. karroo leaf meal inclusion level had no effect (P>0.05) on diet intake, methane emission, live weight changes and digestibility, except (P<0.05) for digestibility of crude fibre. Feed conversion ratio improved linearly with increased A. karroo leaf meal inclusion level. In the case of experiment 2, results of methane emission before and during the experiment indicated that inclusion of A. tortilis leaf meal in the diets of goats reduced (P<0.05) methane emission. Similarly, some of the blood parameters before and after the experiment were affected (P<0.05) by inclusion of A. tortilis leaf meal. However, variation in A. tortilis leaf meal inclusion level had comparable effect (P>0.05) on methane emission, live weight changes and digestibility, except (P<0.05) for digestibility of crude protein and acid detergent fibre. Diet intake and feed conversion ratio were affected (P<0.05) by A. tortilis leaf meal inclusion level. A positive relationship was observed between A. tortilis leaf meal inclusion level and diet intake. In experiment 3, results of methane emission before and during the experiment indicated that inclusion of A. nilotica leaf meal in the diets of goats reduced (P<0.05) methane emission. Similarly, some of the blood parameters before and the after experiment were affected (P<0.05) by inclusion of A. nilotica leaf meal. Apart from diet fat digestibility and feed conversion ratio, no statistical differences (P>0.05) were observed on diet intake, digestibility and live weight changes of goats fed A. nilotica leaf meal inclusion level. Positive relationships were observed between A. nilotica leaf meal inclusion level, diet fat digestibility and feed conversion ratio in male Boer goats. The high crude protein and low tannin contents in A. karroo, A. tortilis and A. nilotica leaves indicate that these Acacia species can be safe to use as a source of protein in animal nutrition if used sparingly. It was noted that nutrient intake, digestibility, vi feed conversion ratio and blood profiles of Boer goats in the present study were optimised at different inclusion levels for all the three Acacia species. This may imply that inclusion levels of A. karroo, A. tortilis and A. nilotica leaf meals for optimal productivity will depend on the Acacia species used and, also, on particular productivity parameters in question. Although, A. karroo, A. tortilis and A. nilotica leaf meal reduced methane emission, optimal reduction in methane emission was not determined. Further validation is required to determine Acacia inclusion levels for optimal methane production and emission by goats. / NRF (National Research Foundation), AGRISETA (Agricultural Sector and Education Training Authority) and NSFAS (National Students Financial Aid Scheme)

The maternal lineages and origins of the South African goat populations are unknown and hence pose challenges for breed characterization and conservation. This study investigated the maternal lineages of South African goats using complete mtDNA and ascertained the genetic diversity in the growth hormone gene within and between populations. Illumina MiSeq next generation sequencing was used to generate the full length of the mtDNA (16.64 kb) and growth hormone (2.54kb) genes in 50 goats of the commercial South African Boer (n =9), captive feral Tankwa (n =9), and SA village goat populations (n =32). The non-descript village populations were sampled from villages of the four major goat-producing provinces; (i) Hobeni village, Elliotdale municipality and Pechelsdam village, Inxubayethemba municipality in Eastern Cape (n=8), (ii) Coniliva and Ngubo villages in Msinga municipality Kwa-Zulu Natal (n=8), (iii) Mukovhabale village, Mutale municipality and Muila-muumone, Makhado municipality in Limpopo (n=8) and (iv) Pella village (n=6), Moses Kotane municipality North West (n=8) provinces of South Africa. A total of 184 SNPs and 55 AA changes were observed across the complete mtDNA genome. High within-population variation was observed in all the groups, ranging from 98.60 to 99.52%. A low FST (FST = 0.003-0.049) indicated close relatedness and possible gene flow between SA goat populations. Haplotypes and clades observed in the D-loop, COX1 and whole mtDNA network trees demonstrated relationships between South African goat populations. The South African goats clustered with Chinese goats from lineages A and B, suggesting common maternal lineages between the Chinese and South African goat populations. The results also suggested that the bezoar (Capra aegagrus) is a possible ancestor of South African domestic goats. A range of 27 to 58 SNPs per population were observed on the growth hormone gene. Amino acid changes from glycine to serine, tyrosine to cysteine and arginine to glycine were observed at exon 2 and exon 5. Gene diversity ranged from 0.8268 ± 0.0410 to 0.9298 ± 0.0050. Higher within breed diversity (97.37%) was observed within the population category consisting of SA village ecotypes and the Tankwa goats. Highest pairwise FST values ranging from 0.148 to 0.356 were observed between the SA Boer and both the SA village and Tankwa feral goat populations. The maximum likelihood phylogenetic analysis indicated nine genetic clades, which reflected close relationships between the South African populations and the other international breeds. Results imply greater potential for within population selection programs particularly with SA village goats. / Life and Consumer Sciences / M.Sc. (Statistical Genomics)

Thesis ( M. Tech. (Agriculture )) - Central University of Technology, Free State, 2014

MSCAGR (Animal Science) / Department of Animal Science / The Boer goat (Capra hircus) is one of the most desirable goat breeds for meat production. The impact of cryopreservation on the viability of its semen depends on the extenders, freezing and thawing methods. This study evaluated the effects on sperm viability in Boer goat semen extended using Bioxcell, Biladyl and Ham’s F10, and frozen in semen straws placed on a rack at 4, 5, 6 or 7 cm above the surface of liquid nitrogen. After storage in liquid nitrogen for 7 days, the frozen semen was thawed at 37 oC for 30 seconds or 90 oC for 5 seconds. Samples of sperm were also frozen to -196 oC in a programmable freezer, as the control regime for the freezing treatments. Sperm morphology, motility and viability were evaluated using the computer aided sperm analysis (CASA) system in a randomised design in which the treatments were in a 3 (extender) X 5 (freezing regime) and X 2 (thawing regime) factorial arrangement. The extenders Bioxcell and Biladyl were affected in the total motility, progressive motility and static (P<0.01), the motility was overall maintained only in straws placed at 5 cm above the liquid nitrogen level, with significant difference for the interaction extender X freezing regime in the total motility (p<0.01), non-progressive motility (p<0.05) and progressive motility (p<0.01), the 37 oC for 30 sec thawing regime had significantly more (P<0.05) in cut-head spermatozoa. Ham’s F10 extender had significantly lower normal spermatozoa (P<0.05) compare to Biladyl and Bioxcell extenders. In conclusion, the extender type, freezing and thawing regime were important factors for consideration in goat semen / NRF