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Individual and maternal breed additive effects and heterosis exist for most economically important traits in cattle. Crossbreeding may therefore be valuable for emerging and commercial beef farmers in improving the productivity of their herds. Calves were produced by mating Afrikaner, Bonsmara and Nguni cows to Afrikaner, Bonsmara, Nguni, Angus and Simmental bulls. The cows used were from Vaalharts Research Station or were purchased from other herds. Data were collected over three years. Individual and maternal additive effects and individual heterosis were estimated simultaneously as continuous linear variates. The estimated genetic effects were then used to predict production levels that may be achieved through implementation of top-cross, two-breed rotation, and terminal sire crossbreeding systems. The individual estimates of the genetic effects were relatively small and in most cases were not different from zero, with the exception of the maternal additive effects of Nguni on preweaning traits and their individual additive effect on cow weight, which were less than those of Bonsmara. However, the alternative crossbreeding systems differed across traits. The straight-bred breeding system was least efficient, followed by the crisscross system (+2%) and the terminal sire system that utilized Simmental (+4%), with the terminal sire system utilizing Angus being on average most efficient (+8%). The inter-generational genetic differences in cow weight that resulted from the use of different breeds of sire increased its standard deviation by 5 to 6% in rotational crossing. Despite the relatively small magnitude of the genetic effects, advantages of crossbreeding systems became evident.Keywords: breed additive, crossbreeding, heterosis, post-weaning, pre-weaning

The aim is of the study was to identify novelty traits that could be used as breeding objectives to improve cow-calf efficiency and describe cow efficiency in extensive systems in support of climate-smart production in beef cattle. The traits that were investigated were ‘weaning weight of the calf as a trait of the dam’ (K205) and ‘kilogram calf weaned per large stock unit’ (KgC/LSU. The latter trait is a value that expresses performance (calf weaning weight) per constant unit, namely per LSU. This may be a useful breeding objective or goal to increase production efficiency, which may reduce the carbon footprint of extensive beef cow-calf production systems. The investigation of the novel traits was conducted on three diverse breeds, namely Afrikaner, Angus and Charolais, with 6104, 7581 and 2291 complete cow-calf records, respectively. Only cows with all three first parities recorded were used to investigate KgC/LSU and K205, as breeding objectives to improve cow-calf efficiency. The heritabilities for KgC/LSU were 0.52, 0.24 and 0.21 for the Afrikaner, Angus and Charolais, respectively, and for K205 were 0.40, 0.17 and 0.13 respectively. The genetic relationship between KgC/LSU and K205 for Angus and Charolais varied substantially. In Charolais cows a strong negative correlation (-0.75) was found, while a strong positive correlation (+0.84) was estimated in Angus cows. These results indicate that a ‘cow efficiency index’ in which several traits (production, fertility and efficiency) are included may be a more effective alternative breeding strategy. Breeding strategies and production systems to improve the production efficiency of beef cattle could play a significant role in reducing the carbon footprint and would enhance climate-smart beef production. Keywords: breeding objective, calf weight, cow weight

SummaryThe reduction of genetic variability in beef cattle has been extensively researched on a global scale. However, the genetic variability and inbreeding of indigenous cattle breeds of Southern Africa, referred to as Sanga cattle, has been less well characterized. Breeds of Sanga cattle include Afrikaner, Drakensberger and Nguni breeds. In recent years, the number of Afrikaner cattle and herds has decreased. Our objective was to determine the mean level of inbreeding (F), effective population size (Ne) and generation intervals of Afrikaner cattle using their recorded pedigree. A total of 244 718 records extending from 1940 until 2011 were analysed. The average inbreeding coefficient was 1.83 percent and the effective population size was 167.54. The average generation interval was calculated as 6.6 ± 3.9 years. Pedigree analysis on the Afrikaner cattle population yielded levels of inbreeding that appear to be both acceptable and manageable. By implication, the largeNeresults in a low rate of change inF. Current results study can be utilized by farmers and the breeders’ society to conserve the Afrikaner and utilize the breed to its full potential in the era of climate change.

The Afrikaner is one of three indigenous cattle breeds found in South Africa. Afrikaner cattle were originally extensively used for crossbreeding purposes and breed development. The objective of this study was to determine the genetic diversity of selected stud and commercial herds from the whole South African Afrikaner population, as well as to determine the genetic structure among these herds. Assignment methods (based on STRUCTURE software) revealed a real structure consisting of four genetic populations (K = 4). Estimates of genetic diversity did not support the hypothesis of significant loss of genetic diversity in any individual Afrikaner herd. Heterozygosity estimates ranged from 0.456 - 0.737 within individual populations, with an overall heterozygosity estimate of 0.568 for the Afrikaner breed. The average number of alleles per locus was regarded as being 2.67 - 7.78, with an average of 5.18 alleles per locus. It could be concluded that a moderate to high degree of variation is still present within the Afrikaner cattle breed, despite the recent decline in numbers of this indigenous breed.Keywords: Bos taurus africanus, heterozygosity, inbreeding, microsatellite markers

The purpose of the study was to investigate a possible genotype by environment interaction in first calf South African Holstein cows for both production and reproduction traits. Data from 100 975 cows on a total mixed ration (TMR) and 22 083 pasture based cows were used. These cows were the progeny of 4 391 sires and 84 935 dams produced over a period of 11 generations. Traits analysed were milk production (corrected to a 305-day equivalent) and age at first calving (AFC). Both were recorded over a period of 30 years from 1980 - 2010. Production or AFC in each environment (TMR vs. pasture) was treated as a separate trait. Bivariate analyses, fitting an animal model using the ASREML software, were used to obtain genetic correlations between the traits measured in each environment. The fixed factors included were a concatenation of breeder-keeper-year for both milk production and AFC and age at first calving which was fitted as a linear regression for milk production. The random part consisted of the direct additive effects only. The genetic correlation for milk production measured in the two different environments was 0.90 (0.027) and that of age at first calving 0.28 (0.12). The heritability estimates for milk production were 0.23 (0.008) under the TMR system and 0.32 (0.015) for the pasture based system, while the estimates for AFC were 0.063 (0.005) and 0.055 (0.009), respectively. The rather large-scale effect in the heritability (0.23 → 0.32), as well as the correlation of less than one for milk production between the two environments, indicates that a G x E may exist. However, the low genetic correlation between the two environments for AFC is much more real and indicates that G x E should be taken into account when sire selection is performed.Keywords: Age at first calving, milk production, total mixed ration, pasture

The wildlife industry in South Africa has shown immense growth since the 1990s, which was brought about by the private game segment of the industry. In recent years, trophy quality Cape buffalo breeding animals have achieved extremely high prices. Much of the economic value of these animals can be attributed to horn size, which is important for breeding and hunting purposes. The main objective of the study was to estimate variance components for horn traits of economic importance as well as to develop guidelines for recording these traits. To date, no quantitative genetic analysis has been done for any traits in Cape buffalo. The total number of horn measurement records included in the evaluation was n = 945 for outer spread (BHSO), n = 470 for tip to tip (BHTSCI), n = 468 for left boss and n = 479 for right boss. For descriptive statistics, males and females were considered separately while age was divided into clusters of six months. A multi-trait animal model using Monte Carlo Markov Chains methods was used for the estimation of genetic parameters. Results suggest that it is not economically viable to measure horn spread and tip to tip of females after 48 months of age. Horns of the males continue to grow beyond 91 months of age. Boss records were unreliable owing to the applied measurement techniques for female and young animals. An inbreeding coefficient of 0.008 was calculated, suggesting adequate genetic diversity in the studied population. The heritability estimates of the horn traits were low, showing that extreme care has to be taken to develop effective selection programmes for the buffalo game industry using their horn genetic parameters. Further quantitative studies are required to support the results of the current study. Keywords: genetic correlation, genetic parameters, heritability, Monte Carlo Markov Chain

The objective of this study was to assess the reproductive performance of two Nguni ecotypes (Nguni and Landim) raised in a subtropical environment to enhance strategies for livestock development and restocking programmes within the southern African region. Reproduction data collected between 1996 and 2009 from 365 cows of the Landim and Nguni ecotypes were analysed. From the results, ecotype, place of birth, year and season of birth/calving had significant effects on age at first calving (AFC) and calving interval (CI). Overall means for AFC and CI were 1,071 ± 166 days and 432 ± 85 days, respectively, while average calving rate was 88.0 ± 4.7%. Heifers born in the dry season had lower AFC than heifers born in the wet season. Heifers born at Impaputo Breeding Center were the youngest at first calving, followed by the South African born ones. Heifers of the Landim ecotype also calved younger than heifers of the Nguni ecotype. CI was shorter in wet seasons (main breeding seasons) than in dry seasons. Interaction between ecotype and year–season (p < 0.005) showed that, in wet and dry seasons, Nguni cows had shorter CI than the Landim. This study demonstrates for the first time a possible genotype-by-environment interaction between Nguni ecotypes. This might aid future cattle development and restocking programmes in southern Africa taking into consideration the adaptation of indigenous genotypes and climate change.

Beef cattle are unique, because they not only suffer from climate change, but they also contribute to climate change through the emission of greenhouse gases (GHG). Mitigation and adaptation strategies are therefore needed. An effective way to reduce the carbon footprint from beef cattle would be to reduce the numbers and increase the production per animal, thereby improving their productivity. Sustainable crossbreeding systems can be an effective way to reduce GHG, as it has been shown to increase production. There are a wide range of different cattle breeds in South Africa which can be optimally utilized for effective and sustainable crossbreeding. This paper reports on the effects of crossbreeding on the kilogram calf weaned per Large Stock Unit (kgC/LSU) for 29 genotypes. These genotypes were formed by crossing Afrikaner (A) cows with Brahman (B), Charolais (C), Hereford (H) and Simmentaler (S) bulls and by back-crossing the F1 cows to the sire lines. A LSU is the equivalent of an ox of 450 kg with a daily weight gain of 500 g on grass pastures with a mean digestible energy (DE) content of 55% and a requirement of 75 MJ metabolizable energy (ME). Crossbreeding with A as dam line increased the kgC/LSU on average by 8 kg (+6%) - with the CA cross producing the most kgC/LSU (+8%) above that of the AA. The BA dam in crosses with C, H and S, increased kgC/LSU on average by 26 kg (+18%) above that of the AA dam, with the H x BA cross, producing the most kgC/LSU (+21%). The BA, CA, HA and SA F1 dam lines, back-crossed to the sire line breeds, increased kgC/LSU on average by 30 kg (21%), 21 kg (15%), 19kg (13%) and 26 kg (18%) above the that of the AA, respectively. The big differences between breeds in kgC/LSU provide the opportunity to facilitate effective crossbreeding that can be useful in the era of climate change. From this study it is clear that cow productivity can be increased by up to 21% through properly designed, sustainable crossbreeding systems, thereby reducing the carbon footprint of beef production.Keywords: Carbon footprint, cow productivity, kilogram calf, production systems

The objective of this study was to discern opportunities for improving leather-making properties of hides originating from beef production systems based on indigenous Afrikaner cattle via crossbreeding. Data were previously unpublished breed means from purebred Afrikaner, Brahman, Charolais, Hereford and Simmental, top-crosses of Brahman, Charolais, Hereford, and Simmental sires on (1) Afrikaner dams producing F1 progenies and (2) Brahman × Afrikaner, Charolais × Afrikaner, Hereford × Afrikaner, and Simmental × Afrikaner F1 females producing both backcross and three-breed cross progenies. Hide yield (%), leather yield (dm2/kg), force 20% extension (Mpa), extension grain crack (%), extension break (%), force break (Mpa), slit tear force (N/mm), distension grain crack (%), and force grain crack (N/mm) were evaluated. Breed direct effects and individual heterosis, but not maternal effects, may be important for most of these traits. Direct effects due to the exotic breeds reduced hide yield but generally improved leather properties relative to the indigenous Afrikaner. For both hide and leather yields, individual heterosis effects arose primarily from indicus × taurus crosses with the Hereford × Brahman effect being most pronounced. Thus, there may be opportunities to improve leather yield and quality through crossbreeding relative to the straightbred Afrikaner. A top-cross mating plan may be recommended to enhance production by subsistence level farmers having access to Afrikaner females, provided that management can ensure appropriate use of the terminal sires.

Global warming is predicted to have a profound effect on livestock production in developing countries. An improved understanding of the adaptation of livestock to such changing production environments is thus important, but the measurement of adaptation is complex and difficult. Proxy-indicators for adaptation, such as reproductive and production traits, however, can be used. Livestock industries have a responsibility to reduce the release of greenhouse gases (i.e. the carbon footprint) and water use (i.e. the water footprint). An effective way of decreasing the carbon and water footprints from livestock is to reduce livestock numbers and increase the production per animal. Increased production generates less greenhouse gas emissions per unit of livestock product. Proper definition of breeding objectives and trait definition is essential in implementing efficient breeding systems to cope with climate change. Sophisticated statistical models continue to support animal breeding and improvement, especially with respect to production traits. Traits linked to fertility and survival are still problematic and appropriate genetic technology to properly characterize these traits needs to be developed. Gene or marker-assisted selection may play an important role in selection for disease and parasite resistance or tolerance, since it is generally difficult to measure these traits directly. Strategies that utilize breeding values derived from genomic analyses may speed up the process of breeding animals with higher and more efficient production and that are adapted to the changing environments as a result of global warming. However, both genetic and epigenetic controls influence genetic expression and should be taken into account when formulating breeding programmes. Subsistence farmers keep livestock for multiple purposes and the formulation of breeding objectives/strategies will have to consider these dynamics. Keywords: Breeding objectives, epigenetics, genomics, production systems, quantitative breeding, residual efficiency traits

The aim of the study was to investigate some population parameters, including generation interval, inbreeding and effective population size of Brangus cattle in South Africa (SA) to assist in constructing an effective selection programme for the SA Brangus breed. Pedigree analysis can describe the genetic variability and change over time, making it an important tool to be used to assess parameters like generation interval, inbreeding, effective population size and number of animals selected against number born. These traits can be used to make more informed selection decisions in order to maintain a genetically healthy population through a better understanding of the dynamics within the population. A Population Structure- and Pedigree Analysis Report was generated with the PopReport programme from the Institute of Farm Animal Genetics (FLI) with a Brangus datafile containing 65 536 animals. Results were reported for the time period of 1986 to 2008 and the following results were obtained: 3-generation pedigree completeness is at 73.8% for 2008, with an inbreeding coefficient of 1.39% and an annual increase in inbreeding of 0.058%. Weighted generation interval was 5.17 years and the effective population size based on the average inbreeding was 166.7 animals. Keywords: Pedigree analysis, Brangus, inbreeding

Variance components and genetic parameters for greasy fleece weights of Muzaffarnagari sheep maintained at the Central Institute for Research on Goats, Makhdoom, Mathura, India, over a period of 29 years (1976 to 2004) were estimated by restricted maximum likelihood (REML), fitting six animal models including various combinations of maternal effects. Data on body weights at 6 (W6) and 12 months (W12) of age were also included in the study. Records of 2807 lambs descended from 160 rams and 1202 ewes were used for the study. Direct heritability estimates for fleece weight at 6 (FW6) and 12 months of age (FW12), and total fleece weights up to 1 year of age (TFW) were 0.14, 0.16 and 0.25, respectively. Maternal genetic and permanent environmental effects did not significantly influence any of the traits under study. Genetic correlations among fleece weights and body weights were obtained from multivariate analyses. Direct genetic correlations of FW6 with W6 and W12 were relatively large, ranging from 0.61 to 0.67, but only moderate genetic correlations existed between FW12 and W6 (0.39) and between FW12 and W12 (0.49). The genetic correlation between FW6 and FW12 was very high (0.95), but the corresponding phenotypic correlation was much lower (0.28). Heritability estimates for all traits were at least 0.15, indicating that there is potential for their improvement by selection. The moderate to high positive genetic correlations between fleece weights and body weights at 6 and 12 months of age suggest that some of the genetic factors that influence animal growth also influence wool growth. Thus selection to improve the body weights or fleece weights at 6 months of age will also result in genetic improvement of fleece weights at subsequent stages of growth.

Well-defined breeding objectives form the basis of sound genetic improvement programmes. Breeding objectives for Holstein cattle in South Africa were developed in the current study. Economic values were calculated for those economically relevant traits that had adequate bio-economic data, namely milk volume, fat yield, protein yield, liveweight, longevity, calving interval and somatic cell score (SCS). A bio-economic herd model for pasture-based and concentrate-fed systems in South Africa was used to calculate economic values by determining changes in profit arising from an independent unit increase in each trait. Alternative payment systems were used from four major milk buyers in South Africa. Relative economic values, standardized to the value of protein yield, were used to compare the relative importance of traits. Protein yield and longevity consistently had positive economic values and the converse was true for liveweight and calving interval. Economic value for volume was positive or negative, depending on whether the payment system rewarded or ignored volume. Sensitivity analysis showed that economic values were reasonably robust against fluctuations in the cost of feed and price of beef; with the exception of fat yield, whose value became negative when feed price exceeded ZAR 3.50. Generally, protein yield was the most important trait, although volume, longevity and SCS were more important in some situations. Calving interval was the least important trait, its value ranging from 4% to 22% of protein yield, although the model may have underestimated its value. Further work should focus on facilitating the wide adoption of these breeding objectives by industry.Keywords: Butterfat yield, economic value, liveweight, longevity, milk yield, protein yield, relative economic value, somatic cell score

Somatic cell count (SCC) is of economic importance in dairy production as it directly influences the revenue from the sale of milk. The current study was carried out to determine the economic value of SCC in South African Holstein and Jersey cattle, in order to establish its relative emphasis in breeding objectives. Bulk-tank SCC was calculated from individual cow test-day SCC for 183 Jersey and 209 Holstein herds that participated in the national milk recording scheme in 2012. SCC premium schemes of the two major milk buyers in the country were used, and herds belonged to either a concentrate-fed or pasture-based production system. The economic value of SCC was determined as the simulated change in profit per cow per year, following a 1% increase in individual bulk-tank SCC. Estimated breeding values (EBVs) are based on log10 transformed SCC (somatic cell score, SCS); therefore the final economic value was expressed in South African rand (ZAR) per SCS. Relative economic values, standardized to the value of protein, were used to compare the relative importance of SCS with other objective traits. An increase in SCS by one unit resulted in decreases in profit ranging from ZAR 491.48 to ZAR 1795.57 per cow per year, depending on the breed, production system and payment system. Economic value was nearly double in the Holstein compared with the Jersey, as well as in the concentrate-fed system relative to the pasture-based system. SCS was among the most important traits in the breeding objective, its value ranging from 26% to 118% compared with the most important trait, protein. High relative emphasis should therefore be placed on SCS in breeding objectives for Holstein and Jersey cattle in South Africa. Keywords : Relative economic value; somatic cell score; breeding objectives

Selection for residual feed intake (RFI) as a trait to improve production efficiency was proposed as early as 1963. A low RFI value indicates a more efficient animal and heritability estimates of between 0.28 and 0.58 have been reported for RFI in the literature. It is also reported that a 13.38 g/d reduction in methane emission was associated with a 1 kg/d reduction in the Estimated Breeding Value (EBV) for RFI, with low-RFI steers emitting 25% less methane daily. The difference in methane production in high and low RFI animals cannot be explained by the difference in feed intake alone. Possible reasons could be digestion of feed, protein turnover and overall tissue metabolism (mitochondrial function, body composition, Insulin Growth Factor-I (IGF-I) and cortisol levels), activity, thermoregulation and growth. Low-RFI animals tend to digest feed better than high-RFI animals, and as intake increases there is a tendency for digestion to decrease. The correlation between RFI and dry matter (DM) digestibility has been determined to be r = –0.33. A positive correlation exists between metabolisable energy for maintenance (ME) and RFI, as well as between ME and protein turnover. Thus protein secretion in low-RFI animals are the same as high-RFI animals, but the breakdown of protein in low-RFI animals is less. Clear differences can be observed in heat production, with low-RFI animals producing up to 21% less heat than high-RFI animals. Selection for low-RFI animals may thus reduce the carbon footprint of beef cattle. Keywords: Body composition, production efficiency, carbon footprint, protein turnover, selection indices, methane emission