A single plaque-pure lambda clone designated λBA84 that hybridized to a ˆ32P-labeled bovine arginine tRNA was isolated from a bovine genomic library harbored in a lambda bacteriophage vector. A 2.3-kilobase segment of this clone was found to contain an arginine transfer RNAccg gene by Southern blot hybridization analysis and dideoxyribonucleotide DNA sequencing. This gene contains the characteristic RNA polymerase III split promoter sequence found in all eukaryotic tRNAs and a potential RNA polymerase III termination site, consisting of four consecutive thymine residues, in the 3'-flanking region. Several possible cis-acting promoter elements were found within the 5'-flanking region of the sequenced gene. The function of these elements, if any, is unknown.

The influences of some environmental and genetic factors on the incidence of abnormal test-days in milk-recorded cows enrolled in the Quebec Dairy Herd Analysis Service (QDHAS) was determined in this study. Conditions Affecting Records (CAR) codes, collected monthly by QDHAS's supervisors, are possible explanation for a reduced production in the day of test. For the purpose of this study, CAR codes were used to analyze the incidence of health problems under generalized linear models methodology. Poisson and logistic regression model analyses were able to model the number of cases of abnormal test-days and health problems per lactation. Herd, testing program, parity number, and stage of lactation were important systematic effects included in the analysis. However, calving year, season of calving, and herd production level were not statistically significant in most analysis. Sires significantly differed in the incidence of some health problems of their daughters. Low heritability values, between 0.02 and 0.05, were found showing that most variability was explained by non-genetic factors. Regardless of the low heritability, the genetic variability has been shown to be considerable, suggesting that a significant genetic improvement of the disease resistance is achievable if proper procedures are adopted.

This study, being part of a larger project - "Canadian/New Zealand GxE Interaction Trial" - is comparing Canadian and New Zealand sired heifers for growth traits within Canada, since differences for growth traits were found in the Polish strain comparison (Jasiorowski et al., 1987) and due to selection programs in the two countries. Twenty Canadian Holstein and twenty New Zealand Friesian progeny tested, A.I. bulls were randomly mated to over 1,000 cows in 10 Canadian herds. 3,539 records of weight and wither height from 475 heifers (i.e. 241 Canadian and 234 New Zealand sired) were generated. Subsets of the data for different stages of heifer maturity were analyzed separately. Herd and strain effects least squares means were estimated using analysis of variance. Genetic and phenotypic and correlations and heritability for weight and wither height were estimated by a Derivative-Free Restricted Maximum Likelihood (DFREML) algorithm and an animal model (AM). No differences were found between sire strains for weight except at 15 and 18 months where sib groups of Canadian (CN) sires were heavier than their New Zealand (NZ) contemporaries (393 vs 386 kg and 447 vs 445 kg, respectively). CN sired heifers were taller at all ages except at birth, 3 and 9 months of age. At 24 months CN heifers were 136 cm while NZ heifers were 133 cm. Heritability estimates for weight at birth was 0.62 for the CN strain and 0.59 for the NZ strain. CN estimates (3 to 6 months) and NZ estimates (3 to 9 months) were close to zero. Between 9 to 24 months CN strain estimates ranged from 0.44 to 0.69 while NZ estimates were 0.17 to 0.51. The joint estimates ranged from 0.10 to 0.66. Heritability estimates for wither height for CN strain at birth and between 9 to 21 months were between 0.34 to 0.66 and close to zero between 3 to 6 and at 24 months. The NZ estimates at birth, 18, 21 and 24 months were between 0.36 to 0.93 but close to zero between 3 to 15 months. The joint estimates ranged from 0.32 to 0.75 between 12 to 24 months. Genetic correlations between weight and wither height ranged from 0.62 to 1.0 for CN strain and from -0.04 to 0.91 for NZ strain between 4.5 to 21 months. At six months of age the genetic correlation for CN strain was -0.01 and NZ strain was 0.54. At birth, both sire groups had a genetic correlation of 1.0. At 24 months NZ strain had a genetic correlation of 0.84 while that of the CN strain was 0. Genetic correlations for the joint analysis ranged from 0.61 to 1.0 for all ages except at 6 months (0.18). Phenotypic correlations between weight and wither height were between 0.33 to 0.60 for CN group and 0.33 to 0.62 for NZ group. The joint estimates were 0.36 to 0.61. There were no differences in the phenotypic variances except at 9, 12 and 15 months. Genetic variances were different at all ages except at birth for weight. / Land and Food Systems, Faculty of / Graduate

No description available.

Reproductive data from 30 research herds were on 31,132 breeding periods of 11,347 dairy cows. Cows were sired by 1,101 sires and had 66,184 services to 1,320 service sires. Several measures of reproductive pe.rformance were calculated. These included conception rate, number of services, service period length, days open, age at first breeding, calving interval, days between services, and return to estrus lag. First, second and third service period were each analyzed separately, while fourth and later service periods were pooled. Heritability was estimated using the sire component of variance and the estimate of the total variance derived from MIVQUEO and maximum likelihood analyses. The data set was restricted to daughters of sires used in multiple herds. Heritability estimates were less than .07 for all traits in the heifer service period except age at first breeding (.2 by maximum likelihood and .13 by MIVQUEO). Similarly, with the exception of conception rate, none of the measures of reproduction had heritabilities greater than .05 for all three remaining service period groups. Conception rate measured as a trait of the male (service sire) ranged from .08 to .135 for second and third service periods. Conception rate as female trait (sire) had heritabilities ranging from .09 to .249 for second and third service periods. Low heritability estimates obtained in this and other studies suggest that large progeny or service sire groups will be necessary to identify the small genetic differences between bulls. Many genetic and phenotypic correlations were forced positive due to a part-whole relationship or due to the fact they were simply different bounds for the same measure. A few correlations were in the range from .50 to .90, but many were not significantly different from zero due to large approximate standard errors. Repeatabilities based upon pairwise comparisons were in the range from 0 to .13. Repeatabilities for the reproductive performance of virgin heifers with first parity ranged from .01 to .06 and were generally smaller than later parities. Repeatabilities based upon repeated measures on the same cow ranged from 0 to .12. Predicted Differences for female (sire) and male (service sire) reproduction were calculated by Best Linear Unbiased Prediction. This analysis included 207 bulls which were in the data both as sire and service sire. Correlations between proofs for male and female reproduction ranged from -.13 to .13. These results suggest limited genetic relationships between male and female fertility. / Ph. D.

Thesis (MScAgric (Animal Sciences))--University of Stellenbosch, 2010. / ENGLISH ABSTRACT: The aim of this study was to evaluate the Simbra breed of cattle for certain non-genetic as well as genetic parameters influencing live weight traits in the breed. Live weight traits included birth weight (BW), weaning weight at 200 days of age (WW), yearling weight at 400 days of age (YW) and 600 day weight. The Simmental and Simbra Breeders’ Society of Southern Africa availed 148751 records for analysis from the year 1987 till 2009. Due to deficiencies of various kinds in the data and the restrictions imposed for the purposes of the analysis, 56.44% of the records were discarded for BW, 76.55% for WW, 91.54% for YW and 96.32% for 600-day weight. Non-genetic parameters affecting BW, WW, YW and 600-day weight were analysed using the General Linear Models procedure of the Statistical Analysis System (SAS, 2004) software. During this procedure sex of calf, breed composition of calf, breeder of calf, month of birth, year of birth and dam age were fitted in the models. BW, WW, YW and Mature Cow Weight (MCW) were fitted as covariates where possible. It was determined that the fixed effects of sex, dam age, breeder, year and month had a significant (P < 0.05) effect of BW and WW while dam age was not significant (P > 0.05) for YW or 600-day weight. Breed was found non significant for YW. Breeder of the calf accounted for the most variation in BW, WW, YW as well as 600-day weight with a contribution of 17.55%, 25.77%, 18.35% and 10.71% respectively. Tukey’s multiple range tests were performed for testing differences between least square means. Results indicated male calves to be significantly heavier than females for all four traits measured. Breed composition differences were found significant until WW. Calves with higher Brahman percentage weighted more at birth while calves with higher Simmental percentage weighed more at weaning. Middle-aged dams were found to account for heavier calves at both BW and WW while very young dams and very old dams produced lighter calves for the two live weight traits. A number of years showed a significant difference from each other for all the traits measured as well as month of birth. (Co) variance components and the resulting genetic parameters were estimated using single-traits and three-traits analysis by means of Restricted Maximum Likelihood procedures (Gilmour et al., 2002). Appropriate models were selected by means of Log likelihood ratios tests and implemented to estimate genetic parameters for each of the traits studied. Direct additive heritabilities for BW, WW, YW and 600-day weight in the Simbra were respectively 0.56 ± 0.08, 0.67 ± 0.09, 0.70 ± 0.11 and 0.10 ± 0.03 when the most suitable animal model was fitted in single-trait analyses for each trait. Single traits analysis also included maternal additive as well as the correlation between direct additive and maternal additive for BW, WW and YW. Maternal additive heritability estimates of 0.24 ± 0.07, 0.33 ± 0.06 and 0.38 ± 0.07 was obtained for BW, WW and YW. Correlation estimates between direct additive and maternal additive were -0.75 ± 0.07, -0.93 ± 0.07 and -0.85 ± 0.08 for BW, WW and YW respectively. Furthermore, dam permanent environment was included as an additional random effect that increased the log likelihood value significantly. A value of 0.04 ± 0.05 was obtained for dam permanent environment estimate for WW. When a three traits analysis was done for the same traits, but using a significantly smaller data set, direct additive heritabilities of 0.24 ± 0.07 for BW, 0.33 ± 0.06 for WW and 0.38 ± 0.07 for YW were obtained. Genetic and environmental correlation estimates of 0.18 ± 0.16 and 0.09 ± 0.06 between BW and WW; 0.27 ± 0.16 and 0.07 ± 0.06 between BW and YW; as well as 0.52 ± 0.10 and 0.45 ± 0.05 between WW and YW were obtained during the three-trait analysis. The magnitude of the heritabilities obtained in this study indicates that the opportunity exists to make genetic progress through proper selection objectives. / AFRIKAANSE OPSOMMING: Die doel van hierdie studie was om die Simbra bees ras te evalueer op grond van sekere niegenetiese so wel as genetiese parameters wat lewende gewig beïnvloed. Gereelde en akkurate opnames van lewende gewig, is ‘n goeie indikasie van groei potensiaal en is ‘n minimim vereiste vir meeste beesras telings genootskappe. Lewende gewigs eienskappe sluit in geboorte gewig (BW), speen gewig gemeet op 200 dae (WW), jaaroue gewig gemeet op 400 dae (YW) en finale gewig gemeet op 600-dag gewig. Die Simmentaler en Simbra genootskap van Suid Afrika het 148751 rekords beskikbaar gestel vir evaluasie vanaf die jaar 1987 tot 2009. Daar was egter groot tekort komings aan die gewewe data en dus is daar 56.44% van die rekords vir BW nie gebruik nie, 76.55% vir WW, 91.54% vir YW en 96.32% vir 600-dag gewig. Nie-genetiese parameters wat die onderskeie lewende gewigte beïnvloed het, is geanaliseer deur Algemene Lineêre Modelle met behulp van die Statistiese Analitiese Sisteem (SAS, 2004) sagteware. Gedurende die analise is geslag van die kalf, ras samestelling, teler van die kalf, maand van geboorte, jaar van geboorte asook moeder ouderdom gepas in die modelle vir die onderskeie gewigte. Geboorte gewig, speen gewig, jaaroue gewig asook volwasse koei gewig is gepas in elk van die modelle as ko-variate. Volgens die resutate is daar vasgestel dat geslag van die kalf, moeder ouderdom, teler, jaar, maand en volwasse koei gewig almal ‘n betekenisvolle (P < 0.05) invloed gehad het op BW en WW. Die moederouderdom was nie betekenisvol (P > 0.05) vir YW of 600-dag gewig nie. Die ras samestelling was ook nie betekenisvol gevind vir YW. Teler van die kalf was verantwoordelik vir die meeste variasie in BW, WW, YW asook 600-dag gewig met ‘n bydrae van 17.55%, 25.77%, 18.35% en 10.71% onderskeidelik. Tukey se veelvuldige vergelykings toets is gebruik om onderskeid te tref tussen “least square means”. Resultate het aangedui dat manlike diere swaarder weeg as vroulike diere tot en met finale gewig. Ras samestelling vir BW en WW was betekenisvol verskillend vir die diere. Kalwers met ‘n hoër Brahmaan persentasie het swaarder BW opgelewer as dié met ‘n hoër Simmentaler persentasie, terwyl kalwers met ‘n hoër Simmentaler persentasie swaarder geweeg het met speen en dus ideal is vir speen kalwer produksie stelsels. Middel-jarige moeders het swaarder kalwers geproduseer met geboorte en speen as baie jong en - ou moeders. Sommige jare waarin van die kalwers gebore is, het ook betekenisvol van mekaar verskil asook die maand waarin die kalf gebore is. Ko) variansie faktore en opeenvolgende genetiese parameters is bepaal met behulp van enkeleienskap analises asook meervuldige-eienskap analises deur middel van die “Restricted Maximum Likelihood” prosedure (Gilmour et al., 2002). Modelle is opgestel vir elk van die gewigte deur die geskikte genetiese terme toe te voeg en te toets met behulp van “Log likelihood tests” om sodoende die onderskeie genetiese parameters te bepaal. Direkte genetiese oorerflikhede bepaal deur enkeleienskap analises vir die Simbra ras was as volg, 0.56 ± 0.08 vir BW, 0.67 ± 0.09 vir WW, 0.70 ± 0.11 vir YW en 0.10 ± 0.03 vir 600-dag gewig. Die direkte maternale genetiese oorerflikhede tydens dieselfde enkel-eienskap analise vir die onderkeie gewigte was 0.24 ± 0.07 vir BW, 0.33 ± 0.06 vir WW en 0.38 ± 0.07 vir YW. Korrelasies tussen direkt genetiese en direk maternale eienskappe was sterk negatief. ‘n Waarde van -0.75 ± 0.07 is bepaal vir BW, -0.93 ± 0.07 vir WW en -0.85 ± 0.08 vir YW. ‘n Adisionele faktor was ook ingelsuit vir WW, naamlik die permanente omgewing van die moeder, wat ‘n waarde opgelewer het van 0.04 ± 0.05. Tydens die veelvuldige-eienskap analise het die oorerflikhede merkwaardig verminder vir die betrokke gewigte en kan ook waargeneem word as die meer korrekte genetiese weergawe. Direkte genetiese oorerflikhede van 0.24 ± 0.07 vir BW, 0.33 ± 0.06 vir WW en 0.38 ± 0.07 vir YW was bepaal. Hierdie matig tot hoë parameters dui op genetiese vordering deur middel van korrekte seleksie prosedures. Genetiese- en omgewing korrelasies is ook bepaal tydens die analise en het positiewe waardes opgelewer. ‘n Genetiese korrelasie waarde van 0.18 ± 0.16 tussen BW en WW is bepaal asook ‘n waarde van 0.27 ± 0.16 tussen BW en YW en ‘n waarde van 0.52 ± 0.10 tussen WW en YW. Hierdie korrelasies dui daarop dat na-speengewigte vermeerder kan word deur te selekteer vir verhoogde WW sonder om BW dramties te vermeerder. Omgewings korrelasie waardes van 0.09 ± 0.06 tussen BW en WW, 0.07 ± 0.06 tussen BW en YW asook ‘n waarde van 0.45 ± 0.05 tussen WW en YW is gevind. Genetiese neigings is bepaal vir die onderskeie gewigte deur die gemiddelde voorspelde teelwaardes aan te teken teenoor elke jaar wat bereken was tydens die enkel-eienskap analises vir die onderskeie gewigte. Groot variasie asook negatiewe tendense vir WW en YW is ondervind van jaar tot jaar en dui daarop dat die seleksie doelwitte vir lewendige gewig nie in plek gestel is nie en is dit nodig om te her evalueer.

Thesis (MScAgric)--University Stellenbosch, 2001. / ENGLISH ABSTRACT: The aim of this study was to estimate genetic parameters as well as to evaluate the influence of some genetic factors on preweaning growth traits in a multi breed beef cattle population. These preweaning growth traits were birth weight (BW), weaning weight (WW) and average daily gain (ADG). Three aspects were addressed in this particular study; namely the Estimation of (co)variance components and genetic parameters, the effect of sire breeds and dam genotypes and the contribution of Charolais and Angus breeding levels on weaning traits in a multibreed beef cattle herd. Variance components and resulting genetic parameters of BW, WW and ADG in the population were estimated by Restricted Maximum Likelihood (REML) procedures. Four different unitrait and multitrait animal models were fitted ranging from a simple model with the animal direct effects as the only random effect to the model allowing for both genetic and permanent maternal environmental effects. The model that included directgenetic and permanent maternal environmental effects generally best described the data analysed. The simple model ignoring maternal effects most likely inflated direct heritability estimates. Direct heritability estimates were 0.11, 0.19, and 0.15 for BW, WW and ADG, respectively, fitting a multitrait model that comprised of both the genetic and maternal environmental effects. Under this comprehensive model, maternal heritabilties were low under both analyses, ranging from 0.02 to 0.10. Permanent maternal environmental effects were more important than maternal additive genetic effects for WW and ADG. Direct and maternal genetic correlations range from 0.42 to 0.44 for BW, -0.22 to -0.25 for WW and -0.17 to -0.23 for ADG, while the corresponding estimates ofunitrait analysis varied from 0.58 to 0.61 for BW, -0.43 to-0.53 for WW and -0.49 to -0.79 for ADG. The effect of Charolais and Hereford sires and dam breed genotypes on BW and WW in calves of Hereford, F I, two and three breed rotational as well as terminal crosses among the Charolais, Hereford, Angus and Bonsmara breeds were investigated. BW and WW of the Charolais sired calves were significantly (P<O.OOl) heavier than the Hereford sired calves. Angus dams produced calves of smaller (P<0.05) BW than those of purebred and crossbred dams. The majority of the crossbred dams were not significantly different in BW of calves. With regard to WW, with the exception of 3/4H1I4A, all crossbred dams were superior (P<0.05) to Angus and Hereford dams. Calves of crossbred dams were on the average 8% heavier at weaning than calves of purebred dams. Crossbred dams, with intermediate Charolais contribution tend to wean heavier calves. Data collected were also analysed to determine the optimum breeding levels of Charolais and Angus, fitting a unitrait animal model. Further, the estimated heritabilities were subsequently used to predict direct and maternal breeding values (Best linear unbiased predictions) for individual animals. Best linear unbiased estimates (BLUEs) were also calculated for the traits. BLUEs, direct and maternal breeding values per genetic group estimated were regressed on proportions of Charolais and Angus breeding, respectively. BLUEs of BW, WW and ADG increased with increasing the proportion of Charolais while they decreased with increasing Angus breeding levels. In general, maternal breeding values increased with increasing the proportions of both breeds. Direct breeding values of Charolais increased and reached maximum values at 35, 38, and 45% proportion of Charolais for BW, WW and ADG, respectively. No optimal Angus proportion was found within these specific environmental conditions. In this herd it may be suggested that increasing the proportion of Charolais to intermediate levels would tend to improve the performances of preweaning traits. / AFRIKAANSE OPSOMMING: Die doel van die studie was om genetiese parameters in 'n meerras vleisbeeskudde te beraam, sowel as om die invloed van sekere genetiese faktore te evalueer. Die voorspeense groei-eienskappe het geboortegewig (BW), speengewig (WW) en gemiddelde daaglikse toename (ADG) ingesluit. Drie aspekte is in dié betrokke studie ondersoek, naamlik; die beraming van (ko )variansiekomponente en genetiese parameters, die invloed van ras van vader en moedergenotipe en die invloed van Charolais en Angus bydrae op speeneienskappe in 'n meerras vleisbeeskudde. Variansiekomponente en afgeleide genetiese parameters vir BW, WW en ADG in die kudde is met behulp van die Beperkte Maksimum Waarskynlikheidsprosedure (REML) beraam. Vier verskillende enkel- en meereienskapmodelle is gepas, wat vanaf 'n eenvoudige model wat slegs die direkte effek as enigste toevallige effek, tot dié model waarin beide die genetiese en permanente mateme omgewingseffekte ingesluit is. Die model wat beide die direkte en permanente mateme effekte ingesluit het, het die data die beste gepas. Die eenvoudige model, wat die mateme effekte nie insluit nie, het in alle waarskynlikheid die direkte oorerflikhede oorberaam. Die direkte oorerflikheidsberamingsas onderskeidlik 0.11, 0.19 en 0.15 vir BW, WW en ADG met dié meereienskapmodel wat beide genetiese en mateme effekte ingesluit het. Met die omvattende model was die mateme oorerflikhede laag en het van 0.02 tot 0.10 gewissel. Die permanente mateme omgewingseffekte was belangriker as die direkte mateme effekte vir WW en ADG. Die genetiese korrelasies tussen direkte en mateme effekte het vir BW tussen 0.42 en 0.44, vir WW tussen -0.22 en -0.25 en vir ADG tussen -0.49 en -0.79 gewissel. Die invloed van Charolais en Hereford bulle en moederrasgenotipes op BW en WW van Hereford, F 1, twee- en drieras rotasie sowel as terminale kruisings tussen die Charolais, Hereford, Angus en Bonsmara is ondersoek. BW en WW van kalwers van Charolais bulle was betekenisvol (P<O.OOl) swaarder as kalwers van Hereford bulle. Angus koeie het kalwers met laer (P<0.05) BW as die van ander suiwer en kruisraskoeie geproduseer. Kalwers van die meerderheid kruisraskoeie het egter nie in BW verskil nie. Wat WW betref, maar met die uitsondering van %HYtA, was alle kruisraskoeie beter (P<0.05) as beide Angus en Hereford koeie. Kalwers van kruisraskoeie was gemiddeld 8 % swaarder met speen as kalwers van suiwerraskoeie. Kruisraskoeie met intermediêre vlakke van Charolaisbydrae het geneig om die swaarste kalwers te speen. Die data is verder ook geanaliseer om die optimum vlakke van Charolais en Angus, deur die passing van 'n enkeleienskap dieremodel, te bepaal. Die beraamde oorerflikhede is vervolgens gebruik om direkte en mateme teelwaardes (Beste liniêre onsydige voospellers ) vir individuele diere te voorspel. Beste liniêre onsydige beramings (BLUE's) is ook vir elke eienskap bereken. Die regressies van BLUE's, direkte en mateme teelwaardes per genetiese groep bereken, is vervolgens op proporsie Charolais en Angus bydraes onderskeidelik gepas. BLUE's vir BW, WW en ADG het met toename In Charolaisproporsie toegeneem, terwyl dit met toename in Angusbydrae afgeneem het. In die algemeen het mateme teelwaardes met toename in die bydrae van beide rasse toegeneem. Direkte teelwaardes van die Charolais het toegeneem en maksimum waardes by 35, 38 en 45 % proporsie Charolais vir onderskeidelik BW, WW en ADG bereik. Vir die Angus is geen optimum proporsie in dié spesifieke omgewing gevind nie. In dié kudde word intermediêre Charolais vlakke vir die verbetering van voorspeense eienskappe aanbeveel.

The objectives of this research were firstly, to investigate if dairy cattle genotypes in NZ exhibit genetic variation in environmental sensitivity and to determine if this genetic variation is statistically significant from a genetic evaluation perspective, and secondly, to use genetic information including environmental sensitivity data to simulate dairy cattle responses to changes in nutritional regime and variation in climate. A comprehensive review identified that simulation models either overlook, or do not represent environmental sensitivity information where genotypes and breeds respond differently when exposed to variations in environment. A large dataset of daily and total lactation records (yields of milk, fat and protein) from herds participating in the progeny testing of sires from 1989 to 2002 was obtained to test for differences in the environmental sensitivity of dairy cattle in New Zealand. Production data was matched with environmental data relating to climate, herd size, altitude and herd average production levels (a proxy for feeding level). The statistical analyses applying univariate and bivariate multibreed models to environmental character states identified minimal sire re-ranking between environmental character states as measured by genetic and rank correlations. However, differences in yields of milk, fat and protein between New Zealand Jersey and overseas Holstein Friesian systematically diverged with production level, in herds expected to use different levels of supplements. These results suggest New Zealand Jersey cattle are best suited to a grassland-type environment, and overseas Holstein Friesian cattle are more suited to an intensive-type environment. A phenotypic analysis identified thermal environment (cold and hot conditions) significantly affected the expression of production traits in Holstein Friesian, New Zealand Jersey and Holstein Friesian x New Zealand Jersey cattle. Holstein Friesian dairy cattle were more susceptible to the effects of heat conditions than New Zealand Jersey cattle with yields of milk, and concentrations of fat and protein of the former compromised at a lower value for temperature humidity index. Dairy cattle performance is likely to be compromised by heat more frequently than cold conditions in New Zealand. A simulation model that considers how dairy cow genotypes respond to different environments, incorporating the results presented above, was then developed. An initial estimate of feed intake is used to define cow genetic potential based on estimated breeding values for total yields milk, fat and protein, and environmental sensitivity information. A mammary gland module then predicts daily yields of milk, fat and protein based on the cow's genetic potential after considering her age, stage of lactation, body condition score, nutritional status and thermal environment. Live weight change is also predicted via a body energy stores module, which considers the effect of age, stage of lactation, current body condition score, nutritional status, and an estimated breeding value for body condition score. Feed intake is predicted from the requirements for maintenance, growth and pregnancy, and the genetic drive for yields of milk, fat and protein and body fat change. The predictive ability of the model was tested using information from a prior study with two Holstein Friesian genotypes managed in a pasture-based system. The model simulated to a high degree of accuracy, mean values for yields of milk, fat and protein, and concentrations of fat and protein of each genotype. Various tests identified the major source of error between simulated and observed values were due to a lack of simulated variation. In conclusion, the extent of genetic variation in environmental sensitivity for total lactation yields of milk, fat and protein within the range of New Zealand environments are not sufficient to warrant the formation of separate breeding schemes for distinct environments. However, New Zealand Jersey cattle are best suited to a grassland-type environment, and overseas Holstein Friesian cattle are more suited to an intensive-type environment. Genetic variation in the suitability of different breeds for specific environments existed within breeds. A simulation model was developed that was able to simulate the effect of genotype, environment and genotypic differences in environmental sensitivity on daily cow performance.

Total weaning weight records of 29,832 Angus and 15,765 Hereford calves born during 1953 through 1983 in Virginia were used to evaluate phenotypic and genetic trends for adjusted weaning weight (AWWT), weaning weight ratio (WWR) and deviation of AWWT from the mean AWWT of the contemporaries (DEVN). Two approaches, namely the regression techniques and maximum likelihood (ML) procedure were taken to estimate the above trends. The estimates of annual phenotypic trend for AWWT in the Angus and Hereford breeds were .96 and .82 kg/yr, respectively. The sire and dam genetic trends obtained from both approaches for the traits of interest were positive and significant; however, the estimates from the regression analyses were slightly higher than those- from the ML procedure. The estimates of one-half of the sire genetic trends obtained from ML procedure for WWR and DEVN were .40 ± .04 ratio units/yr and .72 ± .07 kg/yr in the Angus breed and the corresponding values for the Hereford breed were .25 ± .06 ratio units/yr and .45 ± .12 kg/yr. The estimates of one-half of the darn trends for the corresponding traits were .32 ± .02 ratio units/yr and .55 ± .04 kg/yr for Angus and .21 ± .03 ratio units/yr and .30 ± .07 kg/yr for Herefords. The application of adjustment factors (to eliminate the bias due to non-random mating and culling levels) to estimates of sire genetic trends in the regression analyses produced estimates more similar to the estimates obtained from the ML procedure. The average annual genetic trends over the study period from the ML procedure for AWWT were 1.27 kg/yr for Angus and .75 kg/yr for Herefords. / Ph. D.

Thesis (MScAgric)--Stellenbosch University, 2008. / ENGLISH ABSTRACT: Research conducted on beef cattle in Botswana investigated both growth and reproduction. These studies however, did not specifically determine the influence of the different environmental factors on growth in the Tswana and Composite beef cattle breeds. The establishment of a national beef herd recording and performance testing scheme requires knowledge on the appropriate adjustment methods of field data for the fixed effects such as sex of calf and age of dam. A fair comparison of birth and weaning weights between male and female calves, and calves born from young, mature and old dams will be derived from these adjustment factors. There is no information on adjustment factors for the Tswana and Composite cattle breeds in the country. Genetic parameters for growth traits in these breeds are not known and are needed for the implementation of the performance scheme in Botswana. The Composite breed resulted from a controlled crossbreeding programme using the Simmental, Brahman, Tswana, Tuli and the Bonsmara breeds. The Tswana animals are indigenous to the country and were sourced locally at the beginning of the growth evaluation trial in the two breeds. The objectives of the study were to use data collected from Tswana and Composite cattle breeds to estimate the influence of non-genetic factors on growth traits in the two breeds; to develop adjustment factors for the effects of sex of calf and age of dam; and to estimate genetic parameters (heritabilities and genetic correlations) for future genetic evaluations in both breeds. Data were collected over the period 1988 to 2006. A total of 2 257 records for the Composite breed and 5 923 records for the Tswana breed were available for analyses. Growth characteristics of interest in this study were birth weight (BW), weaning weight (WW), pre-weaning average daily gain (ADG1), 18 months weight (18MW) and post-weaning average daily gain (ADG2). Study 1 indicated that non-genetic effects of breed of calf, sex of calf, month and year of birth, previous parous state, weight of cow at parturition, age of dam, and age of calf at weaning significantly affected BW, WW, 18MW, ADG1 and ADG2 in both breeds. The Composite breed had higher BW, ADG1 and WW whereas the Tswana had higher ADG2 and 18MW. Pre-weaning growth rate increased with an increase in the age of the dam, reaching a peak in mature (5-12 years) cows and declined in cows 13 years and older. Conversely, post-weaning growth rates declined as age of dam advanced but increased in old (13 years and older) dams. Male calves were heavier than female calves for all the growth traits. Birth weight increased as calving season progressed whilst a decrease in WW was observed over the same period. Heifers gave birth to lighter calves when compared to mature multiparous dams. The Composite breed can therefore be considered for weaner production under ranch conditions while the Tswana can be reared under extensive systems due to its adaptability to the environment. Additive correction factors for effects of sex of calf and age of dam on BW and WW were studied separately for the Tswana and Composite in study 2. The least squares means procedure was used to derive age groups and the adjustment factors. The three age groups were young (4 years and below) dams, mature (5-12 years) dams and older (13 years and above) dams. Male calves were heavier than their female counterparts. The sex of calf adjustments for BW and WW were 2.75 and 8.21 kg in the Tswana, and corresponding values for the Composite 2.84 and 10.11 kg, respectively. Birth weight and WW increased as age of dam increased, reached maximum in mature dams and declined in older dams. Age of dam adjustment factors for BW in the 3, 4 and 13+ years age groups for the Tswana were 1.74, 0.96 and 1.87 kg, respectively. The corresponding values for the Composite were 2.28, 0.94 and 2.06 kg, respectively. Age of dam adjustment factors for weaning weight in the Tswana were 10.36 and 5.46 kg for age groups 3-4 and 13+ years, respectively. Adjustment factors for WW in the Composite were 13.84, 3.20 and 9.58 kg for age groups 3, 4 and 13+ years. The differences in adjustment factors obtained between the two breeds emphasize the need to compute and apply these factors within breed. Study 3 involved the estimation of genetic parameters for BW, WW, ADG1, 18MW and ADG2. Single-trait and multi-trait analyses were used in the estimation of (co)variance components by fitting an individual animal model (AM) and the animal maternal model (AMM) for the two breeds. Direct heritabilities for BW, WW, ADG1, 18MW and ADG2 in the Tswana were 0.45, 0.32, 0.37, 0.31 and 0.31, respectively from a single-trait AM analysis. Fitting the AMM resulted in direct heritabilities of 0.31, 0.20 and 0.16 for BW, WW and ADG1, respectively, while the maternal heritabilities were 0.11, 0.15 and 0.21, respectively. For the Composite the direct heritabilities for BW, WW and ADG1 were 0.58, 0.32 and 0.30, respectively with single-trait AM. Partitioning using the AMM resulted in the direct heritabilities for BW, WW and ADG1 of 0.55, 0.17 and 0.14, respectively, while corresponding maternal effects were 0.09, 0.15 and 0.15, respectively. The genetic correlations between direct and maternal effects were positive and ranged from 0.20 to 0.89. When using the multi-trait analysis and fitting the AM, the direct heritabilities for the Tswana were 0.45, 0.37, 0.34, 0.39 and 0.31 for BW, WW, ADG1, 18MW and ADG2, respectively. Genetic correlations between the growth traits ranged from 0.16 to 0.97. Direct (and maternal) heritabilities for BW, WW and ADG1 were 0.31(0.11), 0.19(0.15) and 0.14(0.17), respectively, in the Tswana. Correlations between direct heritabilities for BW, WW and ADG1 ranged from 0.45 to 0.95, while maternal effects ranged from 0.12 to 0.99. The magnitude of the heritabilities indicates an existence of the opportunity to make genetic progress through selection in both breeds. Selection based on WW seems to be the ideal procedure to bring genetic improvement in the Tswana without detrimental long term effects. / AFRIKAANSE OPSOMMING: Navorsing wat op die vleisbeesrasse in Botswana gedoen is, het hoofsaaklik op beide groei en reproduksie gehandel. Hierdie studies het egter nie spesifieke gefokus op die bepaling van die invloed wat verskillende omgewingsfaktore op die groei van saamgestelde (d.i. Composite) en die Tswana vleisbeesrasse het nie. Die bepaling van ʼn nasionale vleisbees rekordhouding- en prestasietoetsskema verg kennis van die mees gepaste metode om velddata vir vaste effekte soos geslag van die kalf en ouderdom van die moeder aan te pas. Hierdie aanpassingsmetodes sal lei tot die regverdige vergelyking van geboorte- en speengewigte tussen manlike en vroulike diere, sowel as van kalwers gebore van jong, volwasse of ou moeders. Tans is daar geen inligting oor aanpassingfaktore vir die Tswana en saamgestelde vleisbeesrasse in Botswana bekend nie. Geen genetiese parameters vir groei-eienskappe vir geeneen van die rasse is beskikbaar nie en word benodig vir die implementering van die prestasie skema in Botswana. Die saamgestelde ras is die produk van ʼn beheerde kruisteeltprogram, wat onderskeidelik die Simmental, Brahman, Tswana, Tuli en die Bonsmara beesrasse ingesluit het. Die Tswana ras is inheems aan Botswana en vanaf plaaslike bronne vir die groei evaluasie studie bekom. Die doelwitte van die studie was eerstens die analisering van data wat van beide die Tswana en saamgestelde rasse ingesamel is, om die invloed van nie-genetiese faktore op die groei eienskappe te bepaal om ten einde aanpassingsfaktore vir die effek van geslag van die kalf en ouderdom van die moederdier te ontwikkel. ʼn Tweede doelwit was die bepaling van genetiese parameters (oorerflikhede en genetiese korrelasies) vir die gebruik in toekomstige genetiese evaluering van beide rasse. Data is vanaf 1988 tot 2006 ingesamel. ʼn Totaal van 2 257 waarnemings vir die saamgestelde ras en 5 923 waarnemings vir die Tswana ras is ontleed. Groei eienskappe wat in die studie ondersoek is, het geboortegewig (BW), speengewig (WW), voorspeen gemiddelde daaglikse toename (ADG1), 18-maand gewig (18MW) en naspeense gemiddelde daaglikse toename (ADG2) ingesluit. Studie een het aangedui dat nie-genetiese effekte van die ras van die kalf, die geslag van die kalf, maand en jaar van geboorte, vorige dragtigheidsstatus, koei se gewig met geboorte van kalf, ouderdom van die moederdier en die speenouderdom van die kalf het ʼn betekenisvolle invloed op BW, WW, 18MW, ADG1 en ADG2 van beide rasse gehad. Die saamgestelde ras het hoër waardes vir BW, ADG1 en WW gehad, terwyl die Tswana ras hoër waardes vir ADG2 en 18MW geopenbaar het. Voorspeense groeitempo het toegeneem met ʼn toename in die ouderdom van die moederdier, met ʼn piek in volwasse (d.i. 5-12 jaar ouderdom) moeders en ʼn afname in koeie 13 jaar en ouer. Omgekeerd het naspeen groeitempo afgeneem met ʼn toename in die ouderdom van die moederdier en weer begin toeneem vir ou (d.i. 13 jaar en ouer) koeie. Geboortegewig het toegeneem met die verloop van die kalfseisoen, terwyl ʼn afname in WW vir dieselfde periode aangeteken is. Verse het, wanneer hulle met volwasse koeie vergelyk is, het geboorte aan ligter kalwers gegee. Die saamgestelde ras kan dus oorweeg word vir die produksie van speenkalwers onder kommersiële intensiewe toestande, terwyl die Tswana ras, op grond van sy beter aanpassing by ekstensiewe omstandighede waar die moederlike invloed nie voorkom nie, vir produksie onder ekstensiewe omstandighede gebruik kan word. In studie 2 is die additiewe korreksie faktore vir die invloed van geslag van die kalf en moederouderdom op BW en WW apart vir die twee rasse bestudeer. Die geslag van die kalf x ouderdom van die moederdier interaksie was nie betekenisvol vir enige van die rasse nie. Dus kan geen aanpassing vir die ouderdom van die moeder binne geslagte vir enige van die twee rasse gemaak word nie. Die kleinste kwadraat gemiddeldes metode is gebruik om die ouderdomsgroepe en aanpassingsfaktore te bepaal. Die drie ouderdomsgroepe was jong (d.i. 4 jaar en jonger) koeie, volwasse (d.i. 5-12 jaar ouderdom) en ouer (d.i. 13 jaar en ouer) koeie. Daar is gevind dat manlike kalwers swaarders as hulle vroulike eweknieë is. Die aanpassingswaarde vir die geslag van die kalf vir BW en WW was 2.75 kg en 8.21 kg in die Tswana en 2.84 kg en 10.11kg vir die saamgestelde ras. Geboortegewig en WW het toegeneem met ʼn toename in die ouderdom van die moeder. Dit het ʼn maksimum bereik in volwasse koeie en afgeneem vir koeie ouer as 13 jaar. Die aanpassingsfaktore vir die ouderdom van die moederdier vir BW in die 3, 4 and 13+ jarige ouderdomsgroepe vir die Tswana ras was onderskeidelik 1.74 kg, 0.96 kg en 1.87 kg. Die ooreenstemmende waardes vir die saamgestelde ras was onderskeidelik 2.28 kg, 0.94 kg en 2.06 kg. Aanpassingsfaktore vir WW vir die Tswana ras was 10.36 kg en 5.46 kg vir onderskeidelik die 3-4 jaar en 13+ jaar en ouer ouderdomsgroepe. Aanpassingsfaktore vir WW in die Composite ras was 13.84 kg, 3.20 kg en 9.58 kg vir onderskeidelik die 3 jaar, 4 jaar en 13 jaar en ouer ouderdomsgroepe. Verskille in die onderskeie parameters vir die twee rasse beklemtoon die noodsaaklikheid vir die berekening en toepassing van die onderskeie aanpassingfaktore vir en binne elke ras. Studie 3 het die bepaling van die genetiese parameters vir BW, WW, ADG1, 18MW en ADG2 behels. Enkel- en multivariaat analises is gebruik vir die skatting van die (ko)variansie komponente deur ʼn direkte diermodel (AM) en ʼn dier-maternale model (AMM) vir die twee rasse te pas. Direkte oorerflikhede vir BW, WW, ADG1, 18MW en ADG2 vir die Tswana ras was onderskeidelik 0.45, 0.32, 0.37, 0.31 en 0.31, vir ʼn enkelvariaat AM analise. Die pas van ʼn AMM het direkte oorerflikhede van 0.31, 0.20 en 0.16 vir onderskeidelik BW, WW and ADG1 gegee, terwyl die maternale oorerflikhede onderskeidelik 0.11, 0.15 en 0.21 was. Vir die saamgestelde ras was die direkte oorerflikhede vir BW, WW en ADG1 onderskeidelik 0.58, 0.32 en 0.30 vir die enkelvariaat AM analise. Verdeling (partisie) van die AMM het direkte oorerflikhede vir BW, WW en ADG1 van onderskeidelik 0.55, 0.17 en 0.14 gegee, terwyl die ooreenstemmende maternale effekte onderskeidelik 0.09, 0.15 en 0.15 was. Die genetiese korrelasies tussen die drekte en maternale effekte was positief en tussen 0.20 en 0.89. Met die multivariaat analise en die pas van die AM, is direkte oorerflikhede van 0.45, 0.37, 0.34, 0.39 en 0.31 vir onderskeidelik BW, WW, ADG1, 18MW en ADG2, vir die Tswana ras bereken. Genetiese korrelasies tussen die groei eienskappe het gewissel tussen 0.16 tot 0.97. Direkte (en maternale) oorerflikhede vir BW, WW en ADG1 was onderskeidelik 0.31(0.11), 0.19(0.15) en 0.14(0.17), vir die Tswana ras. Korrelasies tussen die direkte oorerflikhede vir BW, WW en ADG1 het gewissel tussen 0.45 en 0.95, terwyl die maternale effekte tussen 0.12 en 0.99 gewissel het. Die grootte van die oorerflikhede dui op die moontlikheid van genetiese vordering wat deur seleksie in beide rasse gemaak kan word. Seleksie op grond van WW blyk die mees gepaste wyse te wees waarmee genetiese vordering binne die Tswana ras gemaak kan word, sonder enige langtermyn nadelige effekte.