Your browser doesn't support javascript.
loading
Show: 20 | 50 | 100
Results 1 - 20 de 46
Filter
1.
J Vet Intern Med ; 23(2): 264-70, 2009.
Article in English | MEDLINE | ID: mdl-19210315

ABSTRACT

BACKGROUND: Ventricular arrhythmias (VA) and sudden death are inherited in German Shepherd Dogs (GSDs). OBJECTIVES: To estimate the genetic parameters (heritabilities and correlations) of 3 traits of VA (single premature ventricular complexes (PVCs), 2 consecutive PVCs (couplets), and 3 or more consecutive PVCs-ventricular tachycardia [VT]). ANIMALS: Three hundred and ninety-eight GSDs. METHODS: Prospective, observational, case control study. Dogs were phenotyped by 24-hour ambulatory ECG from 6 to 45 weeks of age. Edited ECG records included the number of incidents of (1) single PVCs, (2) couplets, and (3) VT. RESULTS: A data set of 1,239 Holter records from 398 GSDs was used to estimate genetic variables. Phenotypic correlations for affectedness (binarily coded 0/1) of the 3 traits ranged from 0.55 to 0.74, whereas correlations for severity (continuous values of 24-hour VA counts) ranged from 0.26 to 0.39. Estimates of genetic correlation among the severity traits were 0.06 to 0.27. Estimated heritabilities were 0.54, 0.54, and 0.46 for affectedness and 0.33, 0.69, and 0.69 for severity of PVCs, couplets, and VT, respectively. Month and year of birth and age at ECG recording had significant effects on all 3 traits. Season of ECG recording had a significant effect on the number of single PVCs, but not couplets or incidents of VT. Age of onset differed, with single PVCs appearing an average of 4 days earlier than couplets and VT. CONCLUSION: These results imply a strong genetic component for this disease but suggest that differences in the 3 traits should be taken into consideration in studies to identify the underlying genes.


Subject(s)
Arrhythmias, Cardiac/genetics , Arrhythmias, Cardiac/veterinary , Dog Diseases/genetics , Age of Onset , Animals , Arrhythmias, Cardiac/diagnostic imaging , Case-Control Studies , Dog Diseases/diagnostic imaging , Dogs , Electrocardiography, Ambulatory/veterinary , Female , Genetic Predisposition to Disease , Male , Models, Genetic , Pedigree , Prospective Studies , Ultrasonography
2.
J Anim Sci ; 85(12): 3159-69, 2007 Dec.
Article in English | MEDLINE | ID: mdl-17878282

ABSTRACT

Deoxyribonucleic acid-based tests were used to assign paternity to 625 calves from a multiple-sire breeding pasture. There was a large variability in calf output and a large proportion of young bulls that did not sire any offspring. Five of 27 herd sires produced over 50% of the calves, whereas 10 sires produced no progeny and 9 of these were yearling bulls. A comparison was made between the paternity results obtained when using a DNA marker panel with a high (0.999), cumulative parentage exclusion probability (P(E)) and those obtained when using a marker panel with a lower P(E) (0.956). A large percentage (67%) of the calves had multiple qualifying sires when using the lower resolution panel. Assignment of the most probable sire using a likelihood-based method based on genotypic information resolved this problem in approximately 80% of the cases, resulting in 75% agreement between the 2 marker panels. The correlation between weaning weight, on-farm EPD based on pedigrees inferred from the 2 marker panels was 0.94 for the 24 bulls that sired progeny. Partial progeny assignments inferred from the lower resolution panel resulted in the generation of EPD for bulls that actually sired no progeny according to the high-P(E) panel, although the Beef Improvement Federation accuracies of EPD for these bulls were never greater than 0.14. Simulations were performed to model the effect of loci number, minor allele frequency, and the number of offspring per bull on the accuracy of genetic evaluations based on parentage determinations derived from SNP marker panels. The SNP marker panels of 36 and 40 loci produced EPD with accuracies nearly identical to those EPD resulting from use of the true pedigree. However, in field situations where factors including variable calf output per sire, large sire cohorts, relatedness among sires, low minor allele frequencies, and missing data can occur concurrently, the use of marker panels with a larger number of SNP loci will be required to obtain accurate on-farm EPD.


Subject(s)
Breeding/methods , Cattle/genetics , Pedigree , Polymorphism, Single Nucleotide , Quantitative Trait Loci , Animals , Female , Gene Frequency , Genetic Markers , Likelihood Functions , Male , Models, Genetic , Paternity , Probability , Weight Gain/genetics
3.
J Anim Sci ; 85(5): 1120-5, 2007 May.
Article in English | MEDLINE | ID: mdl-17224467

ABSTRACT

Carcass data from 6,795 Simmental-sired animals born from 1992 to 2001 were used to determine whether adjustment to a constant age, back-fat, HCW, or marbling score would result in differences in heritability of the carcass traits and, correspondingly, if EPD calculated using those variance components and adjustments would result in sire reranking. The endpoints were age (EPA), backfat (EPF), HCW (EPC), or marbling (EPM). The traits analyzed were 12th-rib backfat (FAT), HCW, marbling (MRB), LM area (LMA), and percentage retail cuts (PRC). The data were analyzed using an animal model, where contemporary group was included as a fixed effect and was composed of slaughter date, sex, and herd. Random effects included in the model were direct genetic and residual. Estimates of heritability ranged from 0.12 to 0.14, 0.32 to 0.34, and 0.26 to 0.27 for FAT, HCW, and LMA, respectively, for the corresponding endpoints. Heritability for MRB was estimated to be 0.27 at all endpoints. For PRC, estimates of heritability were more variable, with estimates of 0.23 +/- 0.05, 0.32 +/- 0.05, 0.21 +/- 0.05, and 0.20 +/- 0.04 for EPA, EPF, EPC, and EPM, respectively. However, because the EPF and EPC adjustments adjust for a component trait of PRC (FAT and HCW, respectively), they may be altering the trait to one different from PRC. Spearman rank correlations between EPD within a trait using EPA compared with the other endpoints were >0.90 (P < 0.01) for FAT, HCW, MRB, and LMA. For PRC, Spearman rank correlations with EPA EPD were 0.73 (P < 0.01), 0.93 (P < 0.01), and 0.95 (P < 0.01) for EPF, EPC, and EPM, respectively. For most traits and endpoints, there was little reranking among sires when alternative endpoints were used. However, adjusting PRC to EPF appears to result in a greater heritability and substantial re-ranking of sires, potentially due to the adjustment changing the trait to one other than PRC.


Subject(s)
Body Composition/genetics , Cattle/anatomy & histology , Cattle/genetics , Animals , Breeding , Female , Genetic Markers , Genetic Variation , Heredity , Male
4.
J Anim Sci ; 85(4): 891-900, 2007 Apr.
Article in English | MEDLINE | ID: mdl-17178813

ABSTRACT

Associations between 3 commercially available genetic marker panels (GeneSTAR Quality Grade, GeneSTAR Tenderness, and Igenity Tender-GENE) and quantitative beef traits were validated by the US National Beef Cattle Evaluation Consortium. Validation was interpreted to be the independent confirmation of the associations between genetic tests and phenotypes, as claimed by the commercial genotyping companies. Validation of the quality grade test (GeneSTAR Quality Grade) was carried out on 400 Charolais x Angus crossbred cattle, and validation of the tenderness tests (GeneSTAR Tenderness and Igenity Tender-GENE) was carried out on over 1,000 Bos taurus and Bos indicus cattle. The GeneSTAR Quality Grade marker panel is composed of 2 markers (TG5, a SNP upstream from the start of the first exon of thyroglobulin, and QG2, an anonymous SNP) and is being marketed as a test associated with marbling and quality grade. In this validation study, the genotype results from this test were not associated with marbling score; however, the association of substituting favorable alleles of the marker panel with increased quality grade (percentage of cattle grading Choice or Prime) approached significance (P < or = 0.06), mainly due to the effect of 1 of the 2 markers. The GeneSTAR Tenderness and Igenity TenderGENE marker panels are being marketed as tests associated with meat tenderness, as assessed by Warner-Bratzler shear force. These marker panels share 2 common mu-calpain SNP, but each has a different calpastatin SNP. In both panels, there were highly significant (P < 0.001) associations of the calpastatin marker and the mu-calpain haplotype with tenderness. The genotypic effects of the 2 tenderness panels were similar to each other, with a 1 kg difference in Warner-Bratzler shear force being observed between the most and least tender genotypes. Unbiased and independent validation studies are important to help build confidence in marker technology and also as a potential source of data required to enable the integration of marker data into genetic evaluations. As DNA tests associated with more beef production traits enter the marketplace, it will become increasingly important, and likely more difficult, to find independent populations with suitable phenotypes for validation studies.


Subject(s)
Body Composition/genetics , Cattle/genetics , Genetic Testing/standards , Meat/standards , Reagent Kits, Diagnostic/veterinary , Alleles , Animals , Breeding , Genetic Markers , Genotype , Polymorphism, Single Nucleotide , Reproducibility of Results
5.
J Anim Sci ; 84(8): 2009-21, 2006 Aug.
Article in English | MEDLINE | ID: mdl-16864859

ABSTRACT

A Bayesian method was developed to handle QTL analyses of multiple experimental data of outbred populations with heterogeneity of variance between sexes for all random effects. The method employed a scaled reduced animal model with random polygenic and QTL allelic effects. A parsimonious model specification was applied by choosing assumptions regarding the covariance structure to limit the number of parameters to estimate. Markov chain Monte Carlo algorithms were applied to obtain marginal posterior densities. Simulation demonstrated that joint analysis of multiple environments is more powerful than separate single trait analyses of each environment. Measurements on broiler BW obtained from 2 experiments concerning growth efficiency and carcass traits were used to illustrate the method. The population consisted of 10 full-sib families from a cross between 2 broiler lines. Microsatellite genotypes were determined on generations 1 and 2, and phenotypes were collected on groups of generation 3 animals. The model included a polygenic correlation, which had a posterior mean of 0.70 in the analyses. The reanalysis agreed on the presence of a QTL in marker bracket MCW0058-LEI0071 accounting for 34% of the genetic variation in males and 24% in females in the growth efficiency experiment. In the carcass experiment, this QTL accounted for 19% of the genetic variation in males and 6% in females.


Subject(s)
Chickens/genetics , Chickens/physiology , Quantitative Trait Loci/genetics , Animal Husbandry , Animals , Bayes Theorem , Chickens/growth & development , Computer Simulation , Female , Genetic Markers , Male , Markov Chains , Models, Biological , Monte Carlo Method , Multifactorial Inheritance , Sex Characteristics , Weight Gain
6.
J Hered ; 96(7): 847-53, 2005.
Article in English | MEDLINE | ID: mdl-16251522

ABSTRACT

Recent advances in genomics resources and tools are facilitating quantitative trait locus mapping. We developed a crossbreed pedigree for mapping quantitative trait loci for hip dysplasia in dogs by crossing dysplastic Labrador Retrievers and normal Greyhounds. We show that one advantage to using a crossbreed pedigree is the increased marker informativeness in the backcross/F2 population relative to the founder populations. We also discuss three factors that affect the detection power in the context of this crossbreed pedigree: being able to detect and correct genotyping errors, increasing marker density for chromosomes with a sparse coverage, and adding individuals to the mapping population as soon as they become available.


Subject(s)
Alleles , Hip Dysplasia, Canine/genetics , Microsatellite Repeats/genetics , Polymorphism, Genetic/genetics , Animals , Chromosome Mapping/methods , Dogs , Female , Hybridization, Genetic , Male , Pedigree , Reproducibility of Results , Research Design , Statistics as Topic/methods
7.
J Anim Sci ; 82(12): 3474-81, 2004 Dec.
Article in English | MEDLINE | ID: mdl-15537766

ABSTRACT

Two previously identified single-nucleotide polymorphism markers located within the micromolar calcium-activated neutral protease gene (CAPN1) were evaluated for their association with variation in meat tenderness using one commercial sample of Simmental x Angus crossbred calves and one multibreed, crossbred research herd. The commercial sample included 362 animals sired by 23 registered Simmental bulls bred to unregistered Angus cows and represented current industry animals in which to test the predictive merit of the markers. The second sample was a research herd including 564 steers from the Germplasm Evaluation Cycle VII population at the U.S. Meat Animal Research Center, produced with semen from popular sires of the seven Bos taurus beef breeds with the most registrations in the United States (Angus, Charolais, Gelbvieh, Hereford, Limousin, Red Angus, and Simmental) on Angus, Hereford, and MARC III cows. These animals form a relatively outbred population that constituted a stringent test of the predictive merit of the genetic markers, although small groups were half-sibs. Warner-Bratzler shear force measurements were used to determine tenderness phenotypes for all animals. The populations were genotyped for two markers that predict variation at amino acid positions 316 and 530 of the mu-calpain polypeptide, produced by the CAPN1 gene. Minor allele frequencies for markers 316 and 530 in the commercial sample were 0.17 and 0.37, respectively, and in the Cycle VII animals, were 0.20 and 0.28, respectively. Both markers showed association with shear force in the commercial sample (P = 0.04) and the Cycle VII population (P = 0.02), supporting the hypothesis that they represent potential markers to aid selection for improved meat tenderness in commercial populations of beef cattle in the United States.


Subject(s)
Calpain/genetics , Cattle/genetics , Meat/standards , Alleles , Animals , Breeding , Female , Genetic Markers , Genotype , Male , Polymorphism, Single Nucleotide , Quantitative Trait Loci
8.
J Anim Sci ; 82(3): 661-7, 2004 Mar.
Article in English | MEDLINE | ID: mdl-15032422

ABSTRACT

This study was conducted to compare carcass EPD predicted using yearling live animal data and/or progeny carcass data, and to quantify the association between the carcass phenotype of progeny and the sire EPD. The live data model (L) included scan weight, ultrasound fat thickness, longissimus muscle area, and percentage of intramuscular fat from yearling (369 d of age) Simmental bulls and heifers. The carcass data model (C) included hot carcass weight, fat thickness, longissimus muscle area, and marbling score from Simmental-sired steers and cull heifers (453 d of age). The combined data model (F) included live animal and carcass data as separate but correlated traits. All data and pedigree information on 39,566 animals were obtained from the American Simmental Association, and all EPD were predicted using animal model procedures. The genetic model included fixed effects of contemporary group and a linear covariate for age at measurement, and a random animal genetic effect. The EPD from L had smaller variance and range than those from either C or F. Further, EPD from F had highest average accuracy. Correlations indicated that evaluations from C and F were most similar, and L would significantly (P < 0.05) re-rank sires compared with models including carcass data. Progeny (n = 824) with carcass data collected subsequent to evaluation were used to quantify the association between progeny phenotype and sire EPD using a model including contemporary group, and linear regressions for age at slaughter and the appropriate sire EPD. The regression coefficient was generally improved for sire EPD from L when genetic regression was used to scale EPD to the appropriate carcass trait basis. The EPD from C and F had similar linear associations with progeny phenotype, although EPD from F may be considered optimal because of increased accuracy. These data suggest that carcass EPD based on a combination of live and carcass data predict differences in progeny phenotype at or near theoretical expectation.


Subject(s)
Adipose Tissue/diagnostic imaging , Body Composition/genetics , Cattle/genetics , Muscle, Skeletal/diagnostic imaging , Adipose Tissue/anatomy & histology , Animals , Body Composition/physiology , Breeding , Cattle/anatomy & histology , Female , Male , Meat/standards , Models, Biological , Models, Genetic , Muscle, Skeletal/anatomy & histology , Phenotype , Ultrasonography
9.
J Anim Sci ; 81(6): 1427-33, 2003 Jun.
Article in English | MEDLINE | ID: mdl-12817489

ABSTRACT

The objective of this study was to estimate parameters required for genetic evaluation of Simmental carcass merit using carcass and live animal data. Carcass weight, fat thickness, longissimus muscle area, and marbling score were available from 5,750 steers and 1,504 heifers sired by Simmental bulls. Additionally, yearling ultrasound measurements of fat thickness, longissimus muscle area, and estimated percentage of intramuscular fat were available on Simmental bulls (n = 3,409) and heifers (n = 1,503). An extended pedigree was used to construct the relationship matrix (n = 23,968) linking bulls and heifers with ultrasound data to steers and heifers with carcass data. All data were obtained from the American Simmental Association. No animal had both ultrasound and carcass data. Using an animal model and treating corresponding ultrasound and carcass traits separately, genetic parameters were estimated using restricted maximum likelihood. Heritability estimates for carcass traits were 0.48 +/- 0.06, 0.35 +/- 0.05, 0.46 +/- 0.05, and 0.54 +/- 0.05 for carcass weight, fat thickness, longissimus muscle area, and marbling score, respectively. Heritability estimates for bull (heifer) ultrasound traits were 0.53 +/- 0.07 (0.69 +/- 0.09), 0.37 +/- 0.06 (0.51 +/- 0.09), and 0.47 +/- 0.06 (0.52 +/- 0.09) for fat thickness, longissimus muscle area, and intramuscular fat percentage, respectively. Heritability of weight at scan was 0.47 +/- 0.05. Using a bivariate weight model including scan weight of bulls and heifers with carcass weight of slaughter animals, a genetic correlation of 0.77 +/- 0.10 was obtained. Models for fat thickness, longissimus muscle area, and marbling score were each trivariate, including ultrasound measurements on yearling bulls and heifers, and corresponding carcass traits of slaughter animals. Genetic correlations of carcass fat thickness with bull and heifer ultrasound fat were 0.79 +/- 0.13 and 0.83 +/- 0.12, respectively. Genetic correlations of carcass longissimus muscle area with bull and heifer ultrasound longissimus muscle area were 0.80 +/- 0.11 and 0.54 +/- 0.12, respectively. Genetic correlations of carcass marbling score with bull and heifer ultrasound intramuscular fat percentage were 0.74 +/- 0.11 and 0.69 +/- 0.13, respectively. These results provide the parameter estimates necessary for genetic evaluation of Simmental carcass merit using both data from steer and heifer carcasses, and their ultrasound indicators on yearling bulls and heifers.


Subject(s)
Adipose Tissue/diagnostic imaging , Body Composition/genetics , Cattle/genetics , Muscle, Skeletal/diagnostic imaging , Adipose Tissue/anatomy & histology , Age Factors , Animals , Body Composition/physiology , Breeding , Cattle/growth & development , Female , Likelihood Functions , Male , Meat/standards , Models, Biological , Models, Genetic , Muscle, Skeletal/anatomy & histology , Ultrasonography
10.
J Dairy Sci ; 85(8): 2040-5, 2002 Aug.
Article in English | MEDLINE | ID: mdl-12214997

ABSTRACT

Test-day (TD) models are becoming a standard for genetic evaluation of production traits in dairy cattle. Various approaches to model covariances between TD records include random regression, autoregressive repeatability, orthogonal polynomials, and models based on character processing. The applicability of these models is mainly associated with the number of parameters to estimate, incorporation of multiple lactations, and the accuracy of correlations generated by the cow's repeated expression of milking performance (TD yields) within and across lactations. We define and evaluate a multiple-lactation, autoregressive-repeatability model that disentangles environmental effects due to cow within and between lactations. Simulated records either included or ignored a long-term environmental effect between lactations. Our autoregressive TD animal model correctly detected presence and the absence of this effect and accurately recovered the assumed variance components and correlations underlying the data (10 parameters for three lactations). Estimates of variance components and autocorrelation coefficients were obtained using DFREML-simplex methodology. Given the value of this approach to reduce the size of residual variance components, autoregressive animal models are a preferable alternative to classical methods based on cumulative lactation yield to improve milk production in dairy cattle.


Subject(s)
Cattle/genetics , Cattle/physiology , Lactation/genetics , Models, Biological , Animals , Breeding , Environment , Female , Male , Mathematics , Pedigree
11.
Arq. bras. med. vet. zootec ; 54(4): 414-423, jul.-ago. 2002. tab, graf
Article in Portuguese | LILACS | ID: lil-328418

ABSTRACT

Para estabelecer a melhor forma de considerar os efeitos fixos dos modelos de regressäo aleatória, avaliou-se a utilizaçäo de funçöes polinomiais na descriçäo de curvas de crescimento e no efeito da idade da vaca sobre pesos corporais de 41.415 bovinos jovens da raça Tabapuä, criados em regime de pasto. A idade da vaca ao parto e o sexo do animal influenciaram os pesos nos primeiros dois anos de vida, e o efeito da idade da mäe sobre o desenvolvimento dos animais mostrou-se dependente da idade dos filhos. Altos coeficientes de determinaçäo (R²>0,98) foram alcançados utilizando-se o efeito da idade da vaca no dia da pesagem do animal (i.e., a idade da vaca ao parto mais a idade do animal no dia de sua pesagem) em polinômios de, no mínimo, segundo grau, e curvas de crescimentos médios, diferenciadas para machos e fêmeas, descritas por meio de polinômios de, no mínimo, terceiro grau


Subject(s)
Animals , Male , Female , Cattle , Growth
12.
J Dairy Sci ; 85(2): 406-12, 2002 Feb.
Article in English | MEDLINE | ID: mdl-11913701

ABSTRACT

The objective of this study was to examine transmission of paratuberculosis in dairy cattle attributable to the dam. Milk samples were collected from 8131 cows in 110 Danish dairy herds. The level of antibodies to Mycobacterium avium subspecies paratuberculosis was determined by use of an ELISA. Information on dam and sire was obtained from the Danish Cattle database. The following two data sets were analyzed: Data set A contained all cows < or = 400 days in milk (n = 7410); data set B contained 1056 dam-daughter pairs present simultaneously in herds at the day of sampling. Cows > 400 days in milk were excluded. Linear mixed models were used to obtain variance components for the effect of sire in data set A and the effect of sire and dam-daughter pairs in data set B. Models for both data sets A and B included information previously shown to confound antibody level and information of the relative prevalence of paratuberculosis in the herd. In data set A, the effect explained by sire was 1.9%, whereas it was 6.3% in data set B. The effect from dam-daughter pairs was 7.7%. Those effects were all significant. It was concluded that the parental contribution was significant, and both heritability of susceptibility and vertical transmission should be considered in any control programs on paratuberculosis in dairy cattle.


Subject(s)
Antibodies, Bacterial/analysis , Cattle Diseases/transmission , Infectious Disease Transmission, Vertical/veterinary , Milk/immunology , Mycobacterium avium/immunology , Paratuberculosis/transmission , Animals , Cattle , Cattle Diseases/epidemiology , Cattle Diseases/immunology , Denmark/epidemiology , Enzyme-Linked Immunosorbent Assay , Female , Genetic Predisposition to Disease , Infectious Disease Transmission, Vertical/prevention & control , Linear Models , Male , Paratuberculosis/epidemiology , Paratuberculosis/immunology , Pedigree , Prevalence
13.
J Anim Sci ; 80(1): 45-56, 2002 Jan.
Article in English | MEDLINE | ID: mdl-11833536

ABSTRACT

A Bayesian method for QTL analysis that is capable of accounting for heterogeneity of variance between sexes, is introduced. The Bayesian method uses a parsimonious model that includes scaling parameters for polygenic and QTL allelic effects per sex. Furthermore, the method employs a reduced animal model to increase computational efficiency. Markov Chain Monte Carlo techniques were applied to obtain estimates of genetic parameters. In comparison with previous regression analyses, the Bayesian method 1) estimates dispersion parameters and polygenic effects, 2) uses individual observations instead of offspring averages, and 3) estimates fixed effect levels and covariates and heterogeneity of variance between sexes simultaneously with other parameters, taking uncertainties fully into account. Broiler data collected in a feed efficiency and a carcass experiment were used to illustrate QTL analysis based on the Bayesian method. The experiments were conducted in a population consisting of 10 full-sib families of a cross between two broiler lines. Microsatellite genotypes were determined on generation 1 and 2 animals and phenotypes were collected on third-generation offspring from mating members from different families. Chromosomal regions that seemed to contain a QTL in previous regression analyses and showed heterogeneity of variance were chosen. Traits analyzed in the feed efficiency experiment were BW at 48 d and growth, feed intake, and feed intake corrected for BW between 23 and 48 d. In the carcass experiment, carcass percentage was analyzed. The Bayesian method was successful in finding QTL in all regions previously detected.


Subject(s)
Body Weight/genetics , Chickens/genetics , Quantitative Trait, Heritable , Animals , Bayes Theorem , Body Weight/physiology , Chickens/growth & development , Chickens/physiology , Eating , Female , Genetic Linkage , Genotype , Male , Markov Chains , Microsatellite Repeats , Models, Genetic , Phenotype , Sex Characteristics
14.
Genet Res ; 75(2): 231-41, 2000 Apr.
Article in English | MEDLINE | ID: mdl-10816980

ABSTRACT

A Bayesian approach is presented for mapping a quantitative trait locus (QTL) using the 'Fernando and Grossman' multivariate Normal approximation to QTL inheritance. For this model, a Bayesian implementation that includes QTL position is problematic because standard Markov chain Monte Carlo (MCMC) algorithms do not mix, i.e. the QTL position gets stuck in one marker interval. This is because of the dependence of the covariance structure for the QTL effects on the adjacent markers and may be typical of the 'Fernando and Grossman' model. A relatively new MCMC technique, simulated tempering, allows mixing and so makes possible inferences about QTL position based on marginal posterior probabilities. The model was implemented for estimating variance ratios and QTL position using a continuous grid of allowed positions and was applied to simulated data of a standard granddaughter design. The results showed a smooth mixing of QTL position after implementation of the simulated tempering sampler. In this implementation, map distance between QTL and its flanking markers was artificially stretched to reduce the dependence of markers and covariance. The method generalizes easily to more complicated applications and can ultimately contribute to QTL mapping in complex, heterogeneous, human, animal or plant populations.


Subject(s)
Markov Chains , Monte Carlo Method , Quantitative Trait, Heritable , Animals , Chromosome Mapping , Humans , Models, Genetic
15.
J Dairy Sci ; 83(12): 2963-74, 2000 Dec.
Article in English | MEDLINE | ID: mdl-11132868

ABSTRACT

Genetic relationships between Brazilian and US Holstein cattle populations were studied using first-lactation records of 305-d mature equivalent (ME) yields of milk and fat of daughters of 705 sires in Brazil and 701 sires in the United States, 358 of which had progeny in both countries. Components of(co)variance and genetic parameters were estimated from all data and from within herd-year standard deviation for milk (HYSD) data files using bivariate and multivariate sire models and DFREML procedures distinguishing the two countries. Sire (residual) variances from all data for milk yield were 51 to 59% (58 to 101%) as large in Brazil as those obtained from half-sisters in the average US herd. Corresponding proportions of the US variance in fat yield that were found in Brazil were 30 to 41% for the sire component of variance and 48 to 80% for the residual. Heritabilities for milk and fat yields from multivariate analysis of all the data were 0.25 and 0.22 in Brazil, and 0.34 and 0.35 in the United States. Genetic correlations between milk and fat were 0.79 in Brazil and 0.62 in the United States. Genetic correlations between countries were 0.85 for milk, 0.88 for fat, 0.55 for milk in Brazil and fat in the US, and 0.67 for fat in Brazil and milk in the United States. Correlated responses in Brazil from sire selection based on the US information increased with average HYSD in Brazil. Largest daughter yield response was predicted from information from half-sisters in low HYSD US herds (0.75 kg/kg for milk; 0.63 kg/kg for fat), which was 14% to 17% greater than estimates from all US herds because the scaling effects were less severe from heterogeneous variances. Unequal daughter response from unequal genetic (co)variances under restrictive Brazilian conditions is evidence for the interaction of genotype and environment. The smaller and variable yield expectations of daughters of US sires in Brazilian environments suggest the need for specific genetic improvement strategies in Brazilian Holstein herds. A US data file restricting daughter information to low HYSD US environments would be a wise choice for across-country evaluation. Procedures to incorporate such foreign evaluations should be explored to improve the accuracy of genetic evaluations for the Brazilian Holstein population.


Subject(s)
Cattle/genetics , Fats/analysis , Lactation/genetics , Milk/chemistry , Animals , Brazil , Environment , Female , Genetic Testing/veterinary , Genetic Variation , Genotype , Lactation/physiology , Male , United States
16.
J Dairy Sci ; 81(10): 2738-51, 1998 Oct.
Article in English | MEDLINE | ID: mdl-9812279

ABSTRACT

The objectives of this study were to estimate from test day records the genetic and environmental (co)variance components, correlations, and breeding values to increase genetic gain in milk yield of Lucerna and US Holstein cattle. The effects of repeated observations (within cow) were explained by first-order autoregressive processes within and across lactations using an animal model. Estimates of variance components and correlation coefficients between test days were obtained using derivative-free REML methodology. The autoregressive structure significantly reduced the model error component by disentangling the short-term environmental effects. The additional information and the more heterogeneous environmental variances between lactations in the multiple-lactation test day model than in the first lactation model provided substantially larger estimates of additive genetic variance (0.62 kg2 for Lucerna; 14.73 kg2 for Holstein), heritability (0.13 for Lucerna; 0.42 for Holstein), and individual genetic merit. Rank correlations of breeding values from multiple lactations and from first lactations ranged from 0.18 to 0.37 for females and from 0.73 to 0.89 for males, respectively. Consequently, more selection errors and less genetic gain would be expected from selection decisions based on an analysis of first lactation only, and greater accuracy would be achieved from multiple lactations. Results indicated that substantial genetic gain was possible for milk yield in the Lucerna herd (34 kg/yr). Estimates of genetic variance for Holsteins were larger than previously reported, which portends more rapid genetic progress in US herds also; under our assumptions, increases would be from 173 to 197 kg/yr.


Subject(s)
Breeding , Cattle/genetics , Lactation/genetics , Aging , Animals , Colombia , Dairying/methods , Female , Genetic Variation , Models, Genetic , Phenotype , United States
17.
J Dairy Sci ; 80(1): 121-6, 1997 Jan.
Article in English | MEDLINE | ID: mdl-9120082

ABSTRACT

A linear model was used to estimate the effects of left displaced abomasum on 57,383 test day milk yields collected between January 1, 1992 and December 31, 1993 in New York State from 12,572 Holstein cows in parity < or = 6. Twenty-five index categories were created to differentiate among milk collected between calving and up to 60 d after diagnosis of left displaced abomasum, milk collected > 60 d after diagnosis of left displaced abomasum, milk collected before or after diagnosis of cows with any diseases other than left displaced abomasum, and milk collected from cows that remained healthy for the entire lactation. For each parity, the statistical model included fixed effects (management, age at calving, length of dry period, previous 305-d milk yield, stage of lactation, year and season of sampling date, disease index, and DHIA SCS at milk sampling) and random effects (permanent and temporary environments) on test day milk yields. From calving to 60 d after diagnosis, cows with left displaced abomasum yielded on average 557 kg less milk than did cows without left displaced abomasum; 30% of losses occurred before diagnosis. Milk loss increased as parity and productivity increased. Cows with left displaced abomasum were nearly twice as likely to have another disease than were cows without left displaced abomasum.


Subject(s)
Abomasum , Cattle Diseases/physiopathology , Lactation , Stomach Diseases/veterinary , Animals , Cattle , Female , Models, Statistical , Parity , Stomach Diseases/physiopathology
18.
In. México. Universidad Nacional Autónoma de México (UNAM); México. Secretaria de Gobernación; México. Centro Nacional de Prevención de Desastres (CENAPRED). Volcan Popocatepetl estudios realizados durante la crisis de 1994-1995. México, D.F, México. Comite Científico Asesor CENAPRED - UNAM, jul. 1995. p.25-76, ilus, mapas, tab.
Monography in Es | Desastres -Disasters- | ID: des-8613

ABSTRACT

Dado el gran número de volcanes en México algunos de ellos con un potencial importante de erupción, es fundamental establecer oportunamente sistemas de vigilancia y monitoreo que permitan establecer el estado de su actividad y detectar variaciones que indiquen el inicio de una fase eruptiva mayor. La moderada actividad sísmica y fumarólica del volcán Popocatépetl iniciada en 1993 condujo a iniciar la instalación de estaciones sísmicas de monitoreo. Cuatro estaciones estuvieron en operación y registraron la actividad del volcán durante la pasada crisis iniciada el 21 de diciembre de 1994. A la fecha el sistema está instrumentando con 11 estaciones telemétricas, 8 de ellas con sismómetros y 3 con inclinómetros y un centro de adquisición y procesamiento de datos en Cenapred. En el presente trabajo se describen en forma detallada el sistema instrumentado en el volcán, las técnicas de observación empleadas y los sistemas para el registro y procesamiento de la información (AU)


Subject(s)
Volcanic Eruptions , Equipment and Supplies , Monitoring Stations , Information Services
19.
In. México. Universidad Nacional Autónoma de México (UNAM); México. Secretaria de Gobernación; México. Centro Nacional de Prevención de Desastres (CENAPRED). Volcan Popocatepetl estudios realizados durante la crisis de 1994-1995. México, D.F, México. Comite Científico Asesor CENAPRED - UNAM, jul. 1995. p.139-66, mapas, tab.
Monography in Es | Desastres -Disasters- | ID: des-8619

ABSTRACT

Between December 1st, 1994, and January 30, 1995, 5 digital, Three-component seismographs were installed to record seismic activity associated with Popocatépetl volcano. We describe the records obtained at PPC before, simultaneous with, and after the crisis of December 21, 1994. Site effect amplification at PPC occurs at frequencies larger tham 15 Hz. Therefore, differences in wavw shape and dominant frequencies between Type A and Type-B events may be due to source or path effects. We analyzed the spectra of volcanic tremors and Type-B events before the crisis (AU)


Subject(s)
Earthquakes , Case-Control Studies , Volcanic Eruptions , Risk Assessment
20.
J Dairy Sci ; 77(11): 3316-23, 1994 Nov.
Article in English | MEDLINE | ID: mdl-7814707

ABSTRACT

A linear model for repeated measurements was used to estimate the effects of clinical ketosis on 722,198 test day milk yields collected from September 1, 1985 to January 31, 1988 on 60,851 Finnish Ayrshire cows of parity < 7. An index was created to differentiate among milk collected within 17 d following diagnosis of ketosis, milk collected before or > 17 d after diagnosis, and milk collected on nonketotic cows. For each parity separately, the statistical model included fixed effects (ketosis, calving season, year and season of milk sampling, and stage of lactation) and random effects (herd and permanent and temporary environments) on test day milk yields. The pattern underlying correlations between temporary environmental effects was accommodated in the statistical model. Compared with those for nonketotic cows, lactation curves of cows with ketosis showed a depression in early lactation; estimated milk loss was 44.3 kg for 17 d after diagnosis. The 305-d milk yield of cows diagnosed with ketosis was estimated to be 141.1 kg higher than that of cows free of ketosis. Although milk losses occurred after ketosis, ketotic cows yielded more milk over the entire lactation than did nonketotic cows; and yields would have been even higher if cows had not had ketosis.


Subject(s)
Cattle Diseases/physiopathology , Ketosis/veterinary , Milk/metabolism , Animals , Cattle , Female , Ketosis/physiopathology , Lactation , Models, Statistical , Time Factors
SELECTION OF CITATIONS
SEARCH DETAIL
...