Random Effects Of Animal Research Articles

Genetic parameters for survival during the grow-out period in the GIFT strain of Nile tilapia (Oreochromis niloticus) and correlated response to selection for harvest weight

The aims of this study were the estimation of genetic parameters for survival rate from tagging until harvest and the evaluation of the correlated response in survival rate to selection for harvest weight in the genetically improved farmed tilapia (GIFT) strain. The heritability for survival rate was low (0.038), and so was its genetic correlation with harvest weight (0.065), suggesting that selecting for the latter trait would have had no effect on survival. The calculation of the probability of survival by spawning season and line, fitting a model that included the random effects of individual animal and common environment, confirmed this prediction. There were very small and variable between line differences in the probability of survival, which generally favoured the selection line. We conclude that the focus of the GIFT programme on improving harvest weight was not detrimental to the survival of the fish during the grow-out phase.

Genetic Relationship of Productive Life, Production and Type Traits of Korean Holsteins at Early Lactations.

The present study was performed to study the genetic relationship of productive life with production and type traits of Korean Holsteins at first three lactations. The data for the analysis from 56,054, 28,997, and 11,816 animals of first, second and third parity cows which were born from 2006 to 2011 were collected by Dairy Cattle Improvement Center, National Agricultural Co-operative Federation. Milk, protein and fat yields adjusted for 305 days and average somatic cell score considered as production traits and analyzed type traits were stature, strength, body depth, dairy form, rump angle, rump width, rear leg side view, foot angle, front attachment placement, rear attachment height, rear attachment width, udder cleft, udder depth, front teat placement and front teat length. A multi trait genetic analysis was performed using Wombat program with restricted maximum likelihood animal model composed of fixed effect of birth year, farm and the random effect of animal and random residual effect according to the traits. Heritability estimates of productive life were between 0.06 and 0.13. Genetic and phenotypic correlations between production and productive life traits ranged from 0.35 to 0.04 for milk, 0.16 to 0.05 for protein and 0.18 to 0.02 f 15-0034 (2nd) 150520 or fat. Somatic cells score showed a negative genetic and phenotypic correlation with productive life and also udder type traits, indicating that the selection for higher udder traits will likely to improve resistance to mastitis and persistence in the herd. Among all dairy form type traits, udder characters such as udder cleft showed a significant relationship with productive life. However, a specific change of heritabilities or correlations were not observed with the change of parity. Moreover, further studies are needed to further confirm the significance of the above traits and the effect of parity on above relationships in order to minimize both voluntary and involuntary culling rates while improving herd health and maintaining high yielding dairy cows.

Impact of QTL properties on the accuracy of multi-breed genomic prediction

BackgroundAlthough simulation studies show that combining multiple breeds in one reference population increases accuracy of genomic prediction, this is not always confirmed in empirical studies. This discrepancy might be due to the assumptions on quantitative trait loci (QTL) properties applied in simulation studies, including number of QTL, spectrum of QTL allele frequencies across breeds, and distribution of allele substitution effects. We investigated the effects of QTL properties and of including a random across- and within-breed animal effect in a genomic best linear unbiased prediction (GBLUP) model on accuracy of multi-breed genomic prediction using genotypes of Holstein-Friesian and Jersey cows.MethodsGenotypes of three classes of variants obtained from whole-genome sequence data, with moderately low, very low or extremely low average minor allele frequencies (MAF), were imputed in 3000 Holstein-Friesian and 3000 Jersey cows that had real high-density genotypes. Phenotypes of traits controlled by QTL with different properties were simulated by sampling 100 or 1000 QTL from one class of variants and their allele substitution effects either randomly from a gamma distribution, or computed such that each QTL explained the same variance, i.e. rare alleles had a large effect. Genomic breeding values for 1000 selection candidates per breed were estimated using GBLUP modelsincluding a random across- and a within-breed animal effect.ResultsFor all three classes of QTL allele frequency spectra, accuracies of genomic prediction were not affected by the addition of 2000 individuals of the other breed to a reference population of the same breed as the selection candidates. Accuracies of both single- and multi-breed genomic prediction decreased as MAF of QTL decreased, especially when rare alleles had a large effect. Accuracies of genomic prediction were similar for the models with and without a random within-breed animal effect, probably because of insufficient power to separate across- and within-breed animal effects.ConclusionsAccuracy of both single- and multi-breed genomic prediction depends on the properties of the QTL that underlie the trait. As QTL MAF decreased, accuracy decreased, especially when rare alleles had a large effect. This demonstrates that QTL properties are key parameters that determine the accuracy of genomic prediction.Electronic supplementary materialThe online version of this article (doi:10.1186/s12711-015-0124-6) contains supplementary material, which is available to authorized users.

Modeling breed additive and non-additive genetic effects using a Angus x Nellore crossbred population

The objectives of this study were to estimate fixed genetic (both additive and non-additive) effects and test different non-additive models. These effects included direct and maternal joint breed additive effects, direct and maternal complementarity (or profit heterosis), direct and maternal heterosis (dominance) and direct and maternal epistatic loss non-additive effects. A large crossbred Angus x Nellore population with approximately 300,000 records for weaning gain (WG) and 150,000 records for post-weaning gain (PG) was used. Phenotypic scores for weaning (WC) and post-weaning (PC) conformation, weaning (WP) and post-weaning (PP) precocity, weaning (WM) and post-weaning (PM) muscling and scrotal circumference (SC) were also used. All models included the fixed contemporary group effect and random animal, maternal genetic and permanent environment effects. Each model was tested against all other models for all nine traits using the likelihood ratio test. The complete model, including all additive and non-additive effects and the model without complementarity, were seen to be the best options to analyze this crossbred population. However, least squares may not be the best methodology due to possible collinearity among estimates that may inflate the variance. In the complete model most effects were statistically significant (P<0.01) for weaning traits, except for direct and maternal breed additive effects and direct complementarity effect for WM. For post-weaning traits, the direct complementarity effect for phenotypic scores (PC, PP and PM) and the maternal heterosis effect for PG, PC, PM, were not statistically significant. For scrotal circumference the maternal complementarity, direct and maternal heterosis and maternal epistatic loss effects were not statistically significant. All other effects were statistically significant (P<0.01). For the model without complementarity, the direct breed additive effect for PG and PP was not statistically significant, including the maternal breed additive effect for WC, WD, PP and PM and maternal heterosis, direct and maternal epistatic loss effects for SC. Considering all models, significant direct breed additive effect was mostly positive for weaning traits and was negative for all post-weaning and SC. The significant maternal breed additive and maternal complementarity effects for SC were all negative. The significant direct and maternal epistatic loss effects were negative for all traits and for all models, except for PG in the complete model and for weaning traits in the model including only breed additive and epistatic loss effects. We conclude that the fixed genetic effects are mostly significant, thus it is important to include them in the model when evaluating crossbreed animals and the models including breed additive effects, heterosis and epistatic loss with or without complementarity were the more appropriate.

Cellular and Respiratory Responses to Inhalation of Traffic Derived Particles in a Rat Model of High Fructose Diet‐Induced Cardio‐Metabolic Syndrome

METHODSMale Sprague Dawley rats 250‐350g (Taconic Farms ‐ Rensselaer, NY), were fed for 8‐weeks prior to their first day of exposure with a high‐fructose diet (HFrD; 60% fructose by mass; TD.89247; Harlan Laboratories) to induce the metabolic syndrome phenotype, and continued on the diet until the end of the experiment. Animals were exposed to Aged Primary plus Secondary Organic Aerosol (P+SOA) tunnel emissions (Air Qual Atmos &amp; Health 2013;6(2):419‐429). In all studies, control (Sham) exposures were conducted simultaneously.Animals were implanted with C50‐PXT blood pressure, temperature and ECG telemeters, Continuous respiratory data were collected at the time of exposure. Effects of each exposure were assessed using linear mixed models containing random animal effects and within exposure serial correlation in the form of a first‐order autoregressive process. In addition, we controlled for each day, so comparisons are between exposed and unexposed on a given day, with this difference related to the exposure level.RESULTSAverage exposure concentration was 20.41±6.18υg/m3. Parameter Δ Exp/Sham ± SE p‐value Systolic BP 6.40±3.31 0.055 Diastolic BP 5.01±2.28 0.030 Heart Rate 4.86±3.30 0.143 Frequency 7.30±1.27 &lt;0.001 Tidal Volume 5.34±2.0 0.001 Inspiratory Time ‐9.56±5.33 0.078 Expiratory Time ‐35.73±9.89 &lt;0.001 Peak Inspiratory Flow 1.57±0.36 &lt;0.001 Peak Expiratory Flow 1.13±0.25 &lt;0.001 CONCLUSIONSThe diet‐induced metabolic syndrome model was successfully produced with the high fructose diet. Our toxicological results for blood pressure outcomes behaved similar to our prior exposure with this aerosol in normal animals. Respiratory airflows differed suggesting parasympathetic influences, which had been observed with much higher exposure concentrations.

The use of 2-dimensional gas chromatography to investigate the effect of rumen-protected conjugated linoleic acid, breed, and lactation stage on the fatty acid profile of sheep milk

In this study, 2-dimensional gas chromatography (GC × GC) was used to obtain a detailed fatty acid (FA) profile of sheep milk and to evaluate the effects of a rumen-protected conjugated linoleic acid (rpCLA) supply, breed, days in milk (DIM), sampling period, and number of lambs suckling on the FA profile. Twenty-four ewes, from 3 autochthonous breeds of the Veneto Alps (Brogna, Foza, and Lamon), were housed in 6 pens (2 pens/breed), according to DIM (38±23 d) and body weight (61±13kg). The ewes and their offspring of 3 pens (1 pen/breed) were fed ad libitum a total mixed ration (control), and the other animals received the same diet supplemented with 12 g/d per ewe, plus 4 g/d for each lamb older than 30 d, of an rpCLA mixture. The study lasted 63 d. Two composite milk samples for each ewe were prepared during the first and second months of the trial. The pooled milk samples were analyzed in duplicate for FA profile by 2-dimensional gas chromatography, which allowed us to obtain a detailed FA profile of sheep milk, with 170 different FA detected, including many that were present in small concentrations. The milk relative proportions of individual FA, groups of FA, or FA indices were analyzed by PROC MIXED of SAS (SAS Institute Inc., Cary, NC), considering diet, breed, DIM, and sampling period as sources of variation. The random effect of animal was used to test diet, breed, and DIM, whereas the effects of period were tested on the residual. Breed had a small influence on milk FA profile, mainly on branched- and odd-chain FA. Within breed, animal repeatability for the relative proportions of milk FA was notable for almost all monounsaturated FA and for saturated FA with 14 to 19 carbon atoms, except C16:0, and less so for polyunsaturated FA. The inclusion of rpCLA (CLA cis-9,trans-11 and CLA trans-10,cis-12) increased the presence of the same CLA isomers in the milk as well as that of CLA trans-9,trans-11, and decreased the proportions of de novo-synthesized short-chain FA. From a cluster analysis based on the matrix of correlation coefficients among all FA relative proportions, 3 main FA groups were observed: the first included mainly odd- or branched-chain saturated FA, C18:0, C16:0 and CLA trans-10,cis-12; the second included monounsaturated FA or polyunsaturated FA with 16 to 20 carbons, CLA cis-9,trans-11, and CLA trans-9,trans-11; and the third included short- to medium-chain saturated FA, polyunsaturated FA with 2 to 5 double bonds, and 3 CLA isomers not affected by rpCLA addition (CLA trans-11,cis-13, CLA cis-9,cis-11, and CLA cis-10,cis-12).

Analysis of correlated count data using generalised linear mixed models exemplified by field data on aggressive behaviour of boars

Abstract. Population-averaged and subject-specific models are available to evaluate count data when repeated observations per subject are present. The latter are also known in the literature as generalised linear mixed models (GLMM). In GLMM repeated measures are taken into account explicitly through random animal effects in the linear predictor. In this paper the relevant GLMMs are presented based on conditional Poisson or negative binomial distribution of the response variable for given random animal effects. Equations for the repeatability of count data are derived assuming normal distribution and logarithmic gamma distribution for the random animal effects. Using count data on aggressive behaviour events of pigs (barrows, sows and boars) in mixed-sex housing, we demonstrate the use of the Poisson »log-gamma intercept«, the Poisson »normal intercept« and the »normal intercept« model with negative binomial distribution. Since not all count data can definitely be seen as Poisson or negative-binomially distributed, questions of model selection and model checking are examined. Emanating from the example, we also interpret the least squares means, estimated on the link as well as the response scale. Options provided by the SAS procedure NLMIXED for estimating model parameters and for estimating marginal expected values are presented.

Analysis of correlated count data using generalised linear mixed models exemplified by field data on aggressive behaviour of boars

Population-averaged and subject-specific models are available to evaluate count data when repeated observations per subject are present. The latter are also known in the literature as generalised linear mixed models (GLMM). In GLMM repeated measures are taken into account explicitly through random animal effects in the linear predictor. In this paper the relevant GLMMs are presented based on conditional Poisson or negative binomial distribution of the response variable for given random animal effects. Equations for the repeatability of count data are derived assuming normal distribution and logarithmic gamma distribution for the random animal effects. Using count data on aggressive behaviour events of pigs (barrows, sows and boars) in mixed-sex housing, we demonstrate the use of the Poisson »log-gamma intercept«, the Poisson »normal intercept« and the »normal intercept« model with negative binomial distribution. Since not all count data can definitely be seen as Poisson or negative-binomially distributed, questions of model selection and model checking are examined. Emanating from the example, we also interpret the least squares means, estimated on the link as well as the response scale. Options provided by the SAS procedure NLMIXED for estimating model parameters and for estimating marginal expected values are presented.

Genetic evaluation of the total hip score of four populous breeds of dog, as recorded by the New Zealand Veterinary Association Hip Dysplasia Scheme (1991–2011)

AIM: To use estimated breeding value (EBV) analysis to investigate the genetic trend of the total hip score (to assess canine hip dysplasia) in four populous breeds of dogs using the records from the New Zealand Veterinary Association (NZVA) Canine Hip Dysplasia Scheme database (1991 to 2011).METHODS: Estimates of heritability and EBV for the NZVA total hip score of individual dogs from the German Shepherd, Labrador Retriever, Golden Retriever and Rottweiler breeds were obtained using restricted maximum likelihood procedures with a within-breed linear animal model. The model included the fixed effects of gender, birth year, birth season, age at scoring and the random effect of animal. The pedigree file included animals recorded between 1990 and 2011. A total of 2,983 NZVA hip score records, from a pedigree of 3,172 animals, were available for genetic evaluation. Genetic trends of the NZVA total hip score were calculated as the regression coefficient of the EBV (weighted by reliabilities) on year of birth.RESULTS: The estimates of heritability for hip score were 0.32 (SE 0.08) in German Shepherd, 0.37 (SE 0.08) in Labrador Retriever, 0.29 (SE 0.08) in Golden Retriever and 0.52 (SE 0.18) in Rottweiler breeds. Genetic trend analysis revealed that only the German Shepherd breed exhibited a genetic trend towards better hip conformation over time, with a decline of 0.13 (SE 0.04) NZVA total hip score units per year (p<0.001). The genetic trends of total hip score for the remaining three breeds were not significantly different from zero (p>0.1).CONCLUSIONS: Despite moderate heritability of the NZVA total hip score, there has not been substantial improvement of this trait for the four breeds analysed in the study period.CLINICAL RELEVANCE: Greater improvement in reducing the prevalence of canine hip dysplasia may be possible if screening were to be compulsory as a requirement for registration of pedigree breeding stock, greater selection pressure were to be applied and selection of breeding stock made on the basis on an individual's EBV rather than the NZVA total hip score alone.

Genetic Parameters of Conformation Traits in Young Polish Holstein-Friesian Bulls

Abstract The objective of this study was to estimate the genetic parameters of conformation traits in Polish Holstein-Friesian bulls evaluated for registration in the herd book and for entry into progeny testing. Data were 8 linearly scored (1-9 scale) and 6 composite (scored from 50 to 100) conformation traits of 2,738 young bulls born between 2001 and 2011. The multiple-trait REML method was applied for (co)variance component estimation. The linear model included fixed linear regressions on age at evaluation (from 10 to 23 months), fixed effects of year of birth, fixed effects of herd-classifier, and random animal effect. Heritability estimates for all analysed traits were within the range of 0.04-0.37. Among the 6 composite type traits, heritability was highest for size and for overall conformation score. The lowest heritability was for feet and legs. Among the linearly scored traits, heritability was the lowest for rear legs - side view and foot angle, and the highest for rump angle and muscularity of front end. Composite traits showed the highest genetic correlations with muscularity and final score playing the dominant role. Genetic correlations among linear traits were low and moderate (0.02-0.53). The relatively low genetic and phenotypic correlations indicated that no conformation trait of bulls can be improved by indirect selection alone. More research is needed to establish relationship between bull conformation traits and the conformation of their progeny.

Estimation of regional genetic parameters for mortality and 305-d milk yield of US Holsteins in the first 3 parities

Several research reports have indicated increasing dairy cow mortality in recent years. The objectives of this research were to characterize the phenotypic differences in mortality in the first 3 parities across 3 regions of the United States to estimate the heritability of mortality of Holstein cows across regions and parities, and to estimate genetic and environmental correlations between milk yield and mortality across parities and regions. Dairy Herd Information (DHI) milk yield and mortality data were obtained from 3 different US regions: the Southeast (SE), Southwest (SW), and Northeast (NE). A total of 3,522,824 records for the first 3 parities were used: 732,009 (SE), 656,768 (SW), and 2,134,047 (NE) from 1999 to 2008. Cows that received a termination code of 6—“Cow died on the dairy; downer cows that were euthanized should be included here”—were given a mortality score of 2 (dead), whereas all other codes were assigned a mortality score of 1 (alive). Average annual mortalities in the first 3 parities across regions ranged from 2.2 to 7.2%, with mortality frequency increasing with increasing parity across all regions and with the SE having the highest mortality frequency. For genetic analysis, a 2-trait (305-d milk yield and mortality) linear-threshold animal model that fitted fixed effects of herd-year (for 305-d milk yield), cow age, days in milk (in month classes), month-of-termination, and random effects of herd-year (for mortality), animal, and residual was implemented. The model was used to estimate variance components separately for each region and parity. Heritability estimates for mortality were similar for all regions and parities, ranging from 0.04 to 0.07. Genetic correlations between mortality and 305-d milk yield across the first 3 parities were 0.14, 0.20, and 0.29 in SE; −0.01, 0.01, and 0.31 in SW; and 0.28, 0.33, and 0.19 in NE. We detected an adverse genetic relationship between milk production and mortality; however, the moderate magnitudes of the genetic correlations suggest that indices that include both milk yield and mortality could be effective in identifying sires that would provide opportunities for minimizing death loss even when selecting for increased milk yield.

Genetic parameters for feather pecking and aggressive behavior in a large F2-cross of laying hens using generalized linear mixed models

Feather pecking and aggressive pecking is a well-known problem in egg production. In the present study, genetic parameters for 4 feather-pecking-related traits were estimated using generalized linear mixed models. The traits were bouts of feather pecking delivered (FPD), bouts of feather pecking received (FPR), bouts of aggressive pecking delivered (APD), and bouts of aggressive pecking received (APR). An F2-design was established from 2 divergent selected founder lines. The lines were selected for low or high feather pecking for 10 generations. The number of F2 hens was 910. They were housed in pens with around 40 birds. Each pen was observed in 21 sessions of 20 min, distributed over 3 consecutive days. An animal model was applied that treated the bouts observed within 20 min as repeated observations. An over-dispersed Poisson distribution was assumed for observed counts and the link function was a log link. The model included a random animal effect, a random permanent environment effect, and a random day-by-hen effect. Residual variance was approximated on the link scale by the delta method. The results showed a heritability around 0.10 on the link scale for FPD and APD and of 0.04 for APR. The heritability of FPR was zero. For all behavior traits, substantial permanent environmental effects were observed. The approximate genetic correlation between FPD and APD (FPD and APR) was 0.81 (0.54). Egg production and feather eating records were collected on the same hens as well and were analyzed with a generalized linear mixed model, assuming a binomial distribution and using a probit link function. The heritability on the link scale for egg production was 0.40 and for feather eating 0.57. The approximate genetic correlation between FPD and egg production was 0.50 and between FPD and feather eating 0.73. Selection might help to reduce feather pecking, but this might result in an unfavorable correlated selection response reducing egg production. Feather eating and feather pecking are genetically correlated and this needs further investigation.

Evaluation of the Criollo breed Romosinuano as purebred and crossbred cows with Brahman and Angus in Florida: I. Reproduction and parturition1,2,3

The objectives of this work were to compare reproduction and parturition traits of the Criollo breed Romosinuano as straightbred and crossbred cows with Angus and Brahman, to estimate heterosis and direct and maternal genetic breed effects, and to describe calf loss, cow removals from the project, the occurrence of calving difficulty, inadequate calf vigor at birth, and udder problems by cow breed groups. Cows (n = 404) were born from 2002 to 2005. After their first exposure to bulls as young cows, in all subsequent breeding seasons crossbred cows were bred to bulls of the third breed, and straightbred cows were bred to bulls of the other two breeds. Calving records (n = 1,484) from 2005 to 2011 were used to create calving and weaning rate and calving interval (excluding the interval between 2 and 3 yr of age). Final models for these traits included sire breed-dam breed interaction, cow age within year, and random animal effects. Heterosis estimates for Romosinuano-Brahman calving and weaning rate were 0.06 ± 0.02 and 0.07 ± 0.03 (P < 0.05); those for Brahman-Angus were twice as large (0.13 ± 0.03 and 0.14 ± 0.03, respectively; P < 0.001). Estimates of Brahman direct effects on calving and weaning rate were -0.12 ± 0.04 and -0.14 ± 0.05 (P < 0.05); however, Angus direct effects were beneficial for both traits (0.1 ± 0.05, P < 0.05). The effect of heterosis was to reduce calving interval by -49.2 ± 9.9 and -37.2 ± 9.7 d for Romosinuano-Brahman and Brahman-Angus, respectively (P < 0.001). Romosinuano and F1 cows sired by Romosinuano and out of Angus dams had the most occurrences of difficult births as a proportion of cows that calved (0.028 and 0.025, P = 0.04). Angus-sired crossbred cows and Brahman cows had the most occurrences of udder problems as a proportion of lactating cows (0.14 to 0.21, P < 0.04). There were more Brahman-sired cows that died or were culled as a proportion of those cows that began the project (0.1 to 0.28, P < 0.02) than cows in the other breed groups. Romosinuano-Brahman and Romosinuano-Angus cow performance was acceptable, but for most traits, those pairs of breeds had lower heterosis than Brahman-Angus.

Effects of particle size and moisture levels in mixed rations on the feeding behavior of dairy heifers

Two experiments on replacement heifers (175±12 days of age) assessed the effects of forage particle length and moisture on feeding behavior. Both experiments used a replicated 3×3 Latin square design, with nine heifers per replication and three periods of 9 days each. Each group of nine heifers was housed in one pen with access to three electronic feed bins. In Experiment 1, hay chopped at different lengths was incorporated into three total mixed rations (TMR) all having the same ingredient and nutrient composition but differing in the percentage of long particles (>19 mm): 60% (Short), 64% (Medium) and 72% (Long). In Experiment 2, heifers were fed a TMR with the same ingredient and nutrient composition but differing in moisture content: 65% DM (Dry), 50% DM (Moderate), and 35% DM (Wet). In both experiments, feeding behavior during the last 5 days of each period was analyzed using a mixed model accounting for the fixed effects of treatment and period, and the random effects of replication and animal. In Experiment 1, dry matter intake (DMI) and eating rate (DMI/min) tended to increase, whereas daily eating time decreased as the feed particle size decreased. Heifers fed the Long diet selected in favor of long particles (>19 mm) and against Short (1.18 to 8 mm) and fine (<1.18 mm) particles; heifers fed the Short diet selected against long particles and in favor of short and fine particles. Heifers fed the Medium diet showed a preference for medium particles with no preference for the other particle sizes. In Experiment 2, heifers fed the Dry diet tended to consume more feed than those fed the Moderate and Wet diets, with no differences in feeding behavior or sorting activity. In conclusion the Medium diet minimized sorting without reducing eating rates and intake, and adding water to TMR to achieve a dry matter less than 65% tended to decrease DMI without reducing sorting.

Quantitative genetic study of age at subsequent rebreeding in Nellore cattle by using survival analysis

The continuous trait age at subsequent rebreeding (ASR) was evaluated using survival analysis in Nellore breed cows that conceived for the first time at approximately 14 months of age. This methodology was chosen because the restricted breeding season produces censored data. The dataset contained 2885 records of ASR (in days). Records of females that did not produce calves in the following year after being exposed to a sire were considered censored (48.3% of the total). The statistical model used was a Weibull mixed survival model, which included fixed effects of contemporary groups (CG) and period and a random effect of individual animal. The effect of contemporary groups on ASR was significant (P < 0.01). Heritabilities obtained for ASR were 0.03 and 0.04 in logarithmic and original scales, respectively. These results indicate that the genetic selection response for subsequent reproduction of 2-year-old Nellore breed females is not expected to be effective based on survival analysis. Furthermore, these results suggest that environmental improvement is fundamental to this important trait. It should be highlighted that an increase in the average date of birth can produce an adverse effect in the future, since this cannot be compensated by genetic improvement.

Development of mathematical models to predict volume and nutrient composition of fresh manure from lactating Holstein cows

Organic compounds in dairy manure undergo a series of reactions producing pollutants such as ammonia and methane. Because various organic compounds have different reaction rates, the emissions could be accurately determined if amounts and concentrations of individual nutrients in manure are known. A set of empirical models were developed for predicting faecal and urinary water, carbon (C), nitrogen (N), acid detergent fibre and neutral detergent fibre output (kg/day) from lactating Holstein cows. Dietary nutrient contents, milk yield and composition, bodyweight, age and days in milk were used with or without dry matter intake (DMI) as potential predictor variables. Multi-collinearity, goodness of fit, model complexity, and random study and animal effects were taken into account during model development, which used 742 measured faecal or urinary nutrient output observations (kg/day). The models were evaluated with an independent dataset (n = 364). When DMI was used as a predictor variable, the models predicted faecal and urinary nutrient outputs successfully with root mean square prediction error as a percentage of average observed values (RMSPE%) ranging from 9.1% to 20.7%. All the predictions except urine output had RMSPE% ranging from 18.3% to 24.6% when DMI was not used. The nutrient output predictions were in reasonable agreement with observed values throughout the data range (systematic bias &lt;14% of total bias). Fresh manure C : N ratio predictions were acceptable (RMSPE% = 14.3–15.2%) although the systematic bias were notable (17.1–20.7% of total bias). The models could be integrated successfully with process-based manure or soil models to assess nutrient transformation in dairy production systems.

Genetic relationship of functional longevity with female fertility and milk production traits in Czech Holsteins

The objectives of this study were to estimate heritabilities of and genetic correlations among longevity, milk production, and female fertility traits of Holstein cows. Fertility traits were days open, interval from parturition to first service, and days between the first and last insemination in the first and second lactation, respectively. Production traits were first lactation milk, fat, and protein yield. Functional longevity was defined as the number of days between the first calving and culling, i.e. the length of the productive life. The linear animal model included fixed effects of month-year of first calving, regression on age at first calving, regression on milk yield (only for longevity), and random effects of herd-year, animal, and residual. Heritability estimates for fertility traits ranged from 0.02 &amp;plusmn; 0.009 to 0.06 &amp;plusmn; 0.004. Heritability of longevity was 0.09. Heritability estimates for production traits ranged from 0.29 &amp;plusmn; 0.009 (fat and protein yield) to 0.34 &amp;plusmn; 0.009 (milk yield). Genetic correlations of longevity with fertility were moderate and favourable, ranging from &amp;ndash;0.37 &amp;plusmn; 0.068 to &amp;ndash;0.44 &amp;plusmn; 0.055, except the days between the first and last insemination in the second lactation. Genetic correlations of fertility with production traits were moderate to high and unfavourable, ranging from 0.48 &amp;plusmn; 0.042 to 0.65 &amp;plusmn; 0.034. Substantial herd-year correlations were found between fertility traits. Residual correlations were small except for those between production traits (&amp;gt; 0.85) and between days open and days between the first and last insemination (0.87). Month-year of first calving effects for longevity declined between 1994 and 2002, while those for production traits and for fertility increased slightly or remained stable during this period. Between 1991 and 2003, genetic trend for longevity declined and increased for production. Estimated genetic changes for fertility were unfavourable.

Variance Components and Genetic Parameters for Milk Production and Lactation Pattern in an Ethiopian Multibreed Dairy Cattle Population

The objective of this study was to estimate variance components and genetic parameters for lactation milk yield (LY), lactation length (LL), average milk yield per day (YD), initial milk yield (IY), peak milk yield (PY), days to peak (DP) and parameters (ln(a) and c) of the modified incomplete gamma function (MIG) in an Ethiopian multibreed dairy cattle population. The dataset was composed of 5,507 lactation records collected from 1,639 cows in three locations (Bako, Debre Zeit and Holetta) in Ethiopia from 1977 to 2010. Parameters for MIG were obtained from regression analysis of monthly test-day milk data on days in milk. The cows were purebred (Bos indicus) Boran (B) and Horro (H) and their crosses with different fractions of Friesian (F), Jersey (J) and Simmental (S). There were 23 breed groups (B, H, and their crossbreds with F, J, and S) in the population. Fixed and mixed models were used to analyse the data. The fixed model considered herd-year-season, parity and breed group as fixed effects, and residual as random. The single and two-traits mixed animal repeatability models, considered the fixed effects of herd-year-season and parity subclasses, breed as a function of cow H, F, J, and S breed fractions and general heterosis as a function of heterozygosity, and the random additive animal, permanent environment, and residual effects. For the analysis of LY, LL was added as a fixed covariate to all models. Variance components and genetic parameters were estimated using average information restricted maximum likelihood procedures. The results indicated that all traits were affected (p<0.001) by the considered fixed effects. High grade B×F cows (3/16B 13/16F) had the highest least squares means (LSM) for LY (2,490±178.9 kg), IY (10.5±0.8 kg), PY (12.7±0.9 kg), YD (7.6±0.55 kg) and LL (361.4±31.2 d), while B cows had the lowest LSM values for these traits. The LSM of LY, IY, YD, and PY tended to increase from the first to the fifth parity. Single-trait analyses yielded low heritability (0.03±0.03 and 0.08±0.02) and repeatability (0.14±0.01 to 0.24±0.02) estimates for LL, DP and parameter c. Medium heritability (0.21±0.03 to 0.33±0.04) and repeatability (0.27±0.02 to 0.53±0.01) estimates were obtained for LY, IY, PY, YD and ln(a). Genetic correlations between LY, IY, PY, YD, ln(a), and LL ranged from 0.59 to 0.99. Spearman’s rank correlations between sire estimated breeding values for LY, LL, IY, PY, YD, ln(a) and c were positive (0.67 to 0.99, p<0.001). These results suggested that selection for IY, PY, YD, or LY would genetically improve lactation milk yield in this Ethiopian dairy cattle population.

Genetic parameters for natural antibodies and associations with specific antibody and mastitis in Canadian Holsteins

The objectives of this study were to evaluate (1) natural antibodies (NAb) in Canadian Holstein cows, (2) genetic parameters and associations between NAb and specific antibody (SpAb), and (3) the association of NAb with clinical mastitis and differences in incidence rates of clinical mastitis (IRCM) among cows classified as high, average, or low responders for NAb. Natural antibodies (IgG and IgM) to keyhole limpet hemocyanin and SpAb to a type 2 test antigen were measured on 451 Holsteins from 41 herds across Canada. A series of uni- and tri-variate linear animal models were used to estimate genetic parameters and breeding values for NAb and SpAb. The models included the fixed effects of parity and stage of lactation and the random effects of herd-technician, animal, and residual. Using estimated breeding values for NAb, cows were classified as high, average, or low responders and phenotypic associations with the IRCM were investigated and a logistic regression performed. The estimated heritability was 0.27 for SpAb, and was 0.32 and 0.18 for NAb of the IgG and IgM isotypes, respectively. No significant genetic correlations were found between SpAb and NAb. Although no significant differences in the IRCM were found when cows were classified based on NAb IgG, cows classified as high responders for NAb IgM tended to have a lower IRCM compared with other cows. Immunoglobulin-M was associated with a decreased risk of clinical mastitis (odds ratio=0.958). Results of this study suggest the potential to use NAb IgM as an additional tool to select for disease resistance in cattle, but results need to be validated with a larger sample size.

How Swedish breeders can substantially increase the genetic gain for the English Setter's hunting traits

In both Sweden (Swe) and Norway (Nor), the English Setter is used for hunting. Similar field trials are arranged to give breeders information on the dogs' hunting abilities. Our main objective was to study if a joint Swe-Nor genetic evaluation can improve accuracy compared with estimation of breeding values on a national level only. Genetic parameters for six hunting traits were estimated in univariate (within country) and bivariate (across country, of equivalent traits between countries and joint pedigree) analyses utilizing 3620 Swe records from 685 dogs and 94,414 Nor records from 7175 dogs. A mixed linear animal model was used, including fixed effects of sex, type of trial, year, month and interaction between age and class of trial, and random effects of animal, permanent environment, judge and residual. Heritabilities ranged from 0.07 to 0.13 for Swe and from 0.08 to 0.18 for Nor. The accuracies were higher in the bivariate analyses, especially for dogs with Swe trial results with an average increase of 19%. If comparing selection based on a joint genetic evaluation over phenotypic results alone (which is today's method), the potential genetic gain in Swe was almost doubled. Our results suggest that a joint genetic evaluation is especially advantageous for a population with limited information, such as the English Setter population in Swe. However, it should also be beneficial for Norwegian breeders because it makes it easier for them to select Swedish dogs, potentially resulting in faster genetic gain and lowered inbreeding rate.