Genetic Parameters of Workability Traits in the Population of Polish Holstein-Friesian Cows Based on Conventional and Genomic Data

Heritabilities of workability (WT) traits—milking speed (MS) and temperament (MT)—as well as genetic and phenotypic correlations between these traits in the population of Polish Holstein-Friesian (PHF) cows were estimated. The estimation of genetic parameters was performed twice: first with the use of pedigree data; and second with the use of pedigree and genomic data. Phenotypic data from routinely conducted MS and MT evaluations for 1,045,511 cows born from 2004 to 2013 were available; the cows were evaluated from 2011 to 2015. The main dataset was reduced based on imposed restrictions (e.g., on age of calving, stage of lactation and day of first trial milking). The dataset prepared in this manner comprised 391,615 cows. It was then reduced to daughters of 10% randomly selected sires for computational reasons. Finally, for genetic parameter estimation, 13,280 records of cows were used. The linear observation model included additive random effects of animal, fixed effects of herd-year-season of calving subclass (HYS) and lactation phase, fixed regressions on cow age at calving and the percent of HF breed genes in the cow genotype. Heritabilities estimated based on pedigree data were 0.12 (±0.0067) for MS and 0.08 (±0.0063) for MT, the genetic correlation between MS and MT was estimated at 0.05 (±0.0002) and the phenotypic correlation coefficient was estimated at 0.14 (±0.0004). The inclusion of genomic information of sire bulls had no clear effect on the size of the estimated WT genetic parameters. The heritabilities of MS and MT were 0.11 (±0.0065) and 0.09 (±0.0012), respectively. The genetic and phenotypic correlation coefficients were 0.07 (±0.0003) and 0.12 (±0.0005), respectively. The sizes of the obtained heritabilities of WT and of the genetic and phenotypic correlation between these traits indicate the possibility of effective population improvement for both WT traits.

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The evaluation of genetic parameters of the type of calving in the population of Holstein Friesian cows

Genetika ◽

10.2298/gensr1301041d ◽

2013 ◽

Vol 45 (1) ◽

pp. 41-49

Author(s):

Radica Djedovic ◽

Vladan Bogdanovic ◽

Gligorije Trifunovic ◽

Radmila Beskorovajni ◽

Dragan Stanojevic

Keyword(s):

Birth Weight ◽

Fixed Effects ◽

Genetic Parameters ◽

Random Effect ◽

Genetic Correlations ◽

Correlation Coefficients ◽

Cattle Breed ◽

Least Square ◽

Data Sets ◽

Holstein Friesian

Genetic parameters (heritability coefficients and genetic correlations) of the type of calving, number of stillbirths and birth weight have been evaluated in the population of Holstein Friesian cattle breed. Data sets have been analysed by means of the Mixed Least Square Model (LSMLMW). Besides a random effect of bull-sires, the model has also included the fixed effects of farm, season, sex, the evaluation of viability of calves and types of birth. Estimated heritability values and heritability errors for the type of calving (TC), number of stillbirths (SB) and birth weight (BWT) were low: 0.190 ? 0.062; 0.018 ? 0.006 and 0.149 ? 0.051, respectively. Heritabilities of the analysed traits were evaluated on the grounds of the calves` bull-sires additive value (direct heritability). The values of the genetic correlation coefficients between examined traits ranged from - 0.251 (correlation between the type of calving and number of stillbirths) to 0.340 (correlation between the number of stillbirths and birth weight).

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Realized Sampling Variances of Estimates of Genetic Parameters and the Difference Between Genetic and Phenotypic Correlations

Genetics ◽

10.1093/genetics/143.3.1409 ◽

1996 ◽

Vol 143 (3) ◽

pp. 1409-1416 ◽

Cited By ~ 1

Author(s):

Kenneth R Koots ◽

John P Gibson

Keyword(s):

Genetic Correlation ◽

Genetic Parameters ◽

Genetic Parameter ◽

Genetic Correlations ◽

Phenotypic Correlation ◽

Parameter Estimates ◽

Sampling Variance ◽

Phenotypic Correlations ◽

Genetic And Phenotypic Correlations ◽

Heritability Estimates

Abstract A data set of 1572 heritability estimates and 1015 pairs of genetic and phenotypic correlation estimates, constructed from a survey of published beef cattle genetic parameter estimates, provided a rare opportunity to study realized sampling variances of genetic parameter estimates. The distribution of both heritability estimates and genetic correlation estimates, when plotted against estimated accuracy, was consistent with random error variance being some three times the sampling variance predicted from standard formulae. This result was consistent with the observation that the variance of estimates of heritabilities and genetic correlations between populations were about four times the predicted sampling variance, suggesting few real differences in genetic parameters between populations. Except where there was a strong biological or statistical expectation of a difference, there was little evidence for differences between genetic and phenotypic correlations for most trait combinations or for differences in genetic correlations between populations. These results suggest that, even for controlled populations, estimating genetic parameters specific to a given population is less useful than commonly believed. A serendipitous discovery was that, in the standard formula for theoretical standard error of a genetic correlation estimate, the heritabilities refer to the estimated values and not, as seems generally assumed, the true population values.

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Evaluación fenotípica y genética para características de crecimiento en la raza criolla colombiana Costeño con Cuernos

Ciencia y Tecnología Agropecuaria ◽

10.21930/rcta.vol7_num2_art:65 ◽

2007 ◽

Vol 7 (2) ◽

pp. 12 ◽

Cited By ~ 3

Author(s):

Rodrigo Alfredo Martínez ◽

Juan Esteban Pérez ◽

Teófilo Herazo

Keyword(s):

Birth Weight ◽

Variance Components ◽

Fixed Effects ◽

Genetic Parameters ◽

Growth Traits ◽

Phenotypic Correlation ◽

Phenotypic Variance ◽

Direct Effects ◽

Weaning Weight ◽

Number Of Births

Se establecieron componentes de varianza, así como parámetros fenotípicos y genéticos, respecto de las variables ‘peso al nacimiento’, ‘peso al destete’ (ajustado a los 270 días) y ‘peso a los 480 días’ en un hato del ganado criollo colombiano Costeño con Cuernos. Se analizaron 2.281 registros de pesos al nacer, 1.722 de pesos al destete y 1.086 de pesos ajustados a los 480 días utilizando la metodología de máxima verosimilitud restringida (DFREML). También se ajustó un modelo animal que incluyó efectos genéticos directos, maternos y de ambiente permanente, asumiendo como efectos fijos el año de nacimiento, el sexo del ternero y el número de partos de la madre; finalmente, se estimaron los parámetros genéticos ‘heredabilidad’, ‘repetibilildad’ y se establecieron correlaciones genéticas y fenotípicas. Se reportan bajas estimaciones de heredabilidad de los efectos directos, que varían entre 0,17 ± 0,001 y 0,21 ± 0,074 para los pesos al nacer y al destete, respectivamente; así mismo, fue baja la heredabilidad de los efectos genéticos maternos con relación al peso al nacimiento, aunque estos estimados aumentaron respecto de los pesos al nacer y al destete. Las correlaciones entre efectos directos y maternos fueron negativas, pero el mayor valor se encontró para el peso al nacimiento (-0,89). La contribución del ambiente permanente como proporción de la varianza fenotípica total fue baja y disminuyó a medida que aumentó la edad del animal. Genetic and phenotypic evaluation to characterize growth traits of the native Colombian breed Costeño con CuernosFor a herd of native Colombian breed of cattle -Costeño con Cuernos (CCC)- estimates of variance components for phenotypic and genetic parameters were obtained for birth weight, weight at weaning (adjusted to 270 days) and weight at 480 days. Using the restricted maximum likelihood (REMI) methodology, 2281 birth weight records (PN), 1722 weaning weight records and 1086 weight records adjusted to 480 days were analyze by fitting a model which included direct and maternal genetics effects as well as permanent environmental effects, assuming that fixed effects were year of birth weight, calf gender and the mother number of births. The genetic parameters for heritability, repeatability, genetic and phenotypic correlation were estimated and genotypic and phenotypic correlation was established. Heritability estimates for direct effects are low and range from 0.17 ± 0.001 and 0.21 ± 0.074 for birth and weaning weight respectively; while estimates for maternal genetics effects were also low for PN, they were higher for weaning weight and weight at 480 days. There was a negative correlation between direct and maternal effects, and the higher value was for PN (-0.89). The contribution of the variable permanent environment measured as the contribution of the phenotypic variance was low and diminished as animal age increased.

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Genetic parameters among growth and carcass traits of Canadian Charolais cattle

Canadian Journal of Animal Science ◽

10.4141/a04-019 ◽

2004 ◽

Vol 84 (4) ◽

pp. 589-597 ◽

Cited By ~ 24

Author(s):

D. H. Crews ◽

Jr., M. Lowerison ◽

N. Caron ◽

R. A. Kemp

Keyword(s):

Fixed Effects ◽

Genetic Parameters ◽

Growth Traits ◽

Carcass Traits ◽

Genetic Correlations ◽

Subcutaneous Fat ◽

Field Performance ◽

Pedigree Data ◽

Marbling Score ◽

Muscle Area

Genetic parameters for three growth and five carcass traits were estimated for Charolais using a combination of carcass progeny test, purebred field performance and pedigree data. Heritabilities and genetic and residual correlations were derived from variance components for birth weight (BWT, n = 54 221), 205-d weaning weight (WT205, n = 31 384), postweaning gain (PWG, n = 19 403), hot carcass weight (HCW, n = 6958), average subcutaneous fat thickness (FAT, n = 6866), longissimus muscle area (REA, n = 6863), marbling score (MAR, n = 6903) and estimated carcass lean yield percentage (PLY, n = 6852) with an animal model (n = 78 728) and restricted maximum likelihood. Breed of dam and contemporary group appropriate to each trait were included as fixed effects in the model, whereas random effects included direct genetic for all traits, maternal genetic for BWT and WT205, and maternal permanent environmental for WT205. Carcass traits were adjusted to a constant harvest age of 425 d. Heritability estimates of 0.53, 0.22, and 0.21 were obtained for direct components of BWT, WT205, and PWG, respectively, and maternal heritabilities were 0.16 and 0.10 for BWT and WT205, respectively. Direct × maternal genetic correlations for BWT (-0.49) and WT205 (-0.35) were negative. Heritabilities for HCW, FAT, REA, MAR, and PLY were 0.33, 0.39, 0.43, 0.34, and 0.46, respectively. Genetic correlations among direct effects for growth traits were moderately positive and generally uncorrelated with maternal effects across traits. Lean and fat deposition in the carcass generally had negative, unfavorable genetic correlations, although improvement in lean yield and marbling score may not be strongly antagonistic. Genetic correlations of direct and maternal components of growth traits with carcass traits suggested that selection for increased growth rate would not be antagonistic to improvement in carcass yield or meat quality. Key words: Carcass, Charolais, correlation, genetic parameters, growth

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138 GENETIC PARAMETER ESTIMATION FOR EMBRYO TRANSFER TRAITS

Reproduction Fertility and Development ◽

10.1071/rdv21n1ab138 ◽

2009 ◽

Vol 21 (1) ◽

pp. 169 ◽

Cited By ~ 1

Author(s):

F. A. Di Croce ◽

A. M. Saxton ◽

N. R. Rohrbach ◽

F. N. Schrick

Keyword(s):

Embryo Transfer ◽

Fixed Effects ◽

Large Scale ◽

Genetic Parameters ◽

Genetic Parameter ◽

Genetic Selection ◽

Reproductive Traits ◽

Residual Effects ◽

Limiting Factors ◽

Phenotypic Traits

Genetic selection has made tremendous progress on economically important traits in the beef industry. Most of the progress has been from quantitative genetics through use of expected progeny differences (EPD). These values allow prediction of differences in progeny of a sire compared to progeny of other sires. Development of EPD for male and female reproductive traits has largely been ignored because of low heritability of reproductive traits, even though reproduction plays a vital role in the economics of beef operations. Therefore, continued research in the area of genetic selection for fertility is becoming increasingly important. Critical limiting factors for animal breeding programs using MOET nucleus schemes include variability in superovulatory response of donor animals and resulting pregnancy of transferred embryos. Thus, the overall objective of this research was to develop genetic parameters associated with MOET to assist producers in identifying animals with greater genetic merit for these protocols. Records were examined from a large-scale MOET system in beef cattle that contained data only for cows in which at least one transferable embryo was obtained. Data on these animals were extracted and analyzed on 10 425 transferred embryos (2900 collections) from 611 donor animals (Angus, Brangus, and Charolais) utilizing semen from 215 bulls. Phenotypic traits examined included pregnancy status of the recipient following transfer (ET-preg; determined by rectal palpation at 60 days post-transfer and/or confirmed calving date of recipient), number of transferable embryos per collection (ET-trans), and number of unfertilized ova at collection (ET-UFO). Basic statistical analysis and pedigree/trait files were developed using procedures in SAS (SAS Institute, Cary, NC). Genetic parameters were estimated for a single-trait animal model using restricted maximum likelihood (REML) procedures in Wombat (Meyer K 2007 Zhejiang Uni. Science B 8, 815–821). Wombat also computed EPD and standard errors for each trait evaluated. The model included fixed effects of year as well as random animal and residual effects. The EPD for ET-preg ranged from –6.1 to 4.4% (SE = 2.2 to 4.2) for semen sires (sires of the transferred embryos) and –5.3 to 3.8% (SE = 3.2 to 4.2) for donor animals. Additionally, the heritability estimated for ET-preg was 0.03. Heritability estimated for ET-trans was 0.00, indicating minute genetic variation and thus, EPD were not presented. Heritability estimated for ET-UFO was 0.05 with EPD values (deviation of the number of UFO from the mean) ranging from –0.6 to 0.8 (SE = 0.3 to 0.6) for semen sires and –0.4 to 1.1 (SE = 0.5 to 0.6) for donor cows. As previously shown for reproductive traits, heritability of ET-preg, ET-trans, and ET-UFO was low. Genetic improvement in fertility by selection on embryo transfer traits is possible, but progress would be slow. Further studies are underway on a larger dataset to refine these estimates and to examine repeatability.

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Genetic Variability in Polish Lowland Sheepdogs Assessed by Pedigree and Genomic Data

Animals ◽

10.3390/ani10091520 ◽

2020 ◽

Vol 10 (9) ◽

pp. 1520

Author(s):

Paula Wiebke Michels ◽

Ottmar Distl

Keyword(s):

Genetic Variability ◽

Population Size ◽

Effective Population Size ◽

Ductus Arteriosus ◽

Genomic Data ◽

Reference Population ◽

Pedigree Data ◽

Effective Population ◽

Inbreeding Coefficients ◽

Candidate Loci

Genetic variability of Polish Lowland Sheepdog (PON) population was evaluated using both pedigree and genomic data. The analyzed pedigree encompassed 8628 PONs, including 153 individuals genotyped on the Illumina CanineHD BeadChip. Runs of homozygosity (ROH) were defined for homozygous stretches extending over 60 to 4300 kb. The inbreeding coefficients FPed based on pedigree data and FROH50 based on ROHs were at 0.18 and 0.31. The correlation between both was 0.41 but 0.52 when excluding animals with less than seven complete generations. The realized effective population size (Ne¯) was 22.2 with an increasing trend over years. Five PONs explained 79% of the genetic diversity of the reference population. The effective population size derived from linkage disequilibrium measured by r² was 36. PANTHER analysis of genes in ROHs shared by ≥50% of the PONs revealed four highly over- or underrepresented biological processes. One among those is the 7.35 fold enriched “forelimb morphogenesis”. Candidate loci for hip dysplasia and patent ductus arteriosus were discovered in frequently shared ROHs. In conclusion, the inbreeding measures of the PONs were high and the genetic variability small compared to various dog breeds. Regarding Ne¯, PON population was minimally endangered according to the European Association for Animal Production.

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

Annals of Animal Science ◽

10.2478/aoas-2014-0071 ◽

2014 ◽

Vol 14 (4) ◽

pp. 831-840

Author(s):

Agnieszka Otwinowska-Mindur ◽

Ewa Ptak ◽

Wojciech Jagusiak ◽

Andrzej Żarnecki

Keyword(s):

Fixed Effects ◽

Genetic Parameters ◽

Dominant Role ◽

Genetic Correlations ◽

Progeny Testing ◽

Multiple Trait ◽

Holstein Friesian ◽

Type Traits ◽

Genetic And Phenotypic Correlations ◽

Final Score

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.

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Some factors affecting the estimation of genetic parameters for cattle dystocia under a threshold model

Animal Science ◽

10.1017/s0003356100020067 ◽

1991 ◽

Vol 53 (2) ◽

pp. 151-156 ◽

Cited By ~ 9

Author(s):

E. J. Manfredi ◽

M. San Cristobal ◽

J. L. Foulley

Keyword(s):

Maternal Effects ◽

Fixed Effects ◽

Genetic Parameters ◽

Threshold Model ◽

Genetic Parameter ◽

Random Effect ◽

Large Data ◽

Marginal Maximum Likelihood ◽

Factors Affecting ◽

Maternal Grandsire

AbstractGenetic parameters for dystocia in the Main-Anjou breed were estimated. Data consisted of 28 178 birth records collected between 1978 and 1989 in 995 herds, with 161, 71 and 12 415 sires, maternal grandsires and dams, respectively, represented. Original scores (1 through 5) were collapsed in order to set two dystocia definitions: dystocia 1 (scores 1+2 v. 3+4+5) and dystocia 2 (scores 1 v. 2+3+4+5). Four models were proposed for genetic parameter estimation: (1) fixed effects plus sire effects; (2) model 1 plus maternal grandsire effect; (3) model 2 plus dam within maternal grandsire effects; (4) same as model 3 but a random effect ‘herds’ replaced a fixed effect ‘regions’. Two methods of fitting models were applied: marginal maximum likelihood and the ‘tilde-hat’ approach. Estimates of genetic parameters by the two methods were similar. Models ignoring maternal effects overestimated the heritability of direct effects especially in the case of dystocia 2. Dystocia definition was responsible for the greatest difference among estimated genetic parameters. Possible reasons for this are discussed. When analysing large data sets, it is recommended judiciously to collapse dystocia categories and to apply approximate statistical procedures to complete models including maternal effects.

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Determination of the best model for estimation of genetic parameters on the Fars native chicken traits using Bayesian and REML methods

Genetika ◽

10.2298/gensr1802431m ◽

2018 ◽

Vol 50 (2) ◽

pp. 431-447

Author(s):

Ali Mohammadi ◽

Yousef Naderi ◽

Reza Nabavi ◽

Fatemeh Jafari

Keyword(s):

Body Weight ◽

Bayesian Approach ◽

Bayesian Method ◽

Genetic Parameters ◽

Genetic Parameter ◽

Correlation Coefficients ◽

Native Chicken ◽

Egg Number ◽

Estimation Of Genetic Parameters

This study was conducted to determine the best model for genetic parameter estimation on the Fars native chicken traits using Bayesian and REML Methods. Studied traits were body weight at first day (BW1), body weight at eighth weeks (BW8), body weight at 12th weeks (BW12), age at sexual maturity (ASM), egg number production (EGP) and mean egg weight during 28th ,30th and 32nd week ages (EGW) involving three generations 17, 18 and 19 during the years 2010 to 2012. Genetic parameters were estimated with REML method using WOMBAT software and with Bayesian approach using MTGSAM software. Based on AIC and DIC criteria, the most appropriate model was determined. Estimations of direct additive heritabilities for BW1, BW8, BW12, ASM, EGP and EGW by the best models using REML method were 0.31, 0.32, 0.29, 0.45, 0.24 and 0.22 and by Bayesian method were 0.36, 0.33, 0.30, 0.48, 0.26 and 0.25, respectively. The genetic correlation coefficients ranged from -0.709 between EGP and ASM to 0.844 between BW8 and BW12 (by Bayesian method) and ranged from -0.724 between ASM and EGP to 0.894 between BW12 and BW8 (by REML method). Generally, based on the employed criteria, the 1st and 2nd models can be suggested for analysis of body weight traits (BW1, BW8 and BW12), whereas for other traits (ASM, EGP and EGW), 1st, 5th, 4th and 6th models seems to be suitable for estimation of genetic parameters of the Fars Native fowls traits using Bayesian and REML Methods. The Bayesian approach recommended for estimation of genetic parameters on the Fars native chicken traits because this method used the prior distribution in the calculation process.

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Estimation of Genetic Parameters and Character Association in Indian Mustard (Brassica juncea L.)

International Journal of Plant & Soil Science ◽

10.9734/ijpss/2021/v33i1930611 ◽

2021 ◽

pp. 145-156

Author(s):

H. Kumar ◽

A. Kumar ◽

S. Gupta ◽

V. Gupta ◽

Amit Kumar Singh

Keyword(s):

Seed Yield ◽

Genetic Parameters ◽

Association Studies ◽

Genetic Parameter ◽

Indian Mustard ◽

Uttar Pradesh ◽

Yield Potential ◽

Phenotypic Data ◽

R Packages ◽

Seed Yields

An experiment was undertaken to examine the yield potential and genetic parameters of Indian mustard through yield and yield contributing traits in the Bundelkhand region of Uttar Pradesh. Twenty-five mustard genotypes were assessed for nine agro-morphological traits during Rabi 2018-19. Phenotypic data were subjected to analysis of variance, pairwise mean comparison, genetic parameter studies, and association analysis using R-Packages 1.5, STAR 2.0.1, and SPAR 2.0 Package. The evaluated germplasm had ample genetic variability for studied traits and trait-specific genotypes have been identified. The trait seed yield showed higher heritability coupled with higher genetic advance as percent of the mean (99% and 70.41) followed by the number of SB (98% and 65.57) and TSW (100% and 62.50) are more authentic for selecting the leading genotype. The association studies revealed a significant and positive correlation of seed yield with the number of siliquae per plant (0.346), siliquae length (0.333), and 1000 seed-weight (0.237) at both genotypic and phenotypic levels. The lines Maya, RH 119, IC 571649, Durgamini, and IC 447111 showed better performance and produced higher seed yields in the Bundelkhand region. These identified genotypes having desirable trait combinations may be utilized for creating variability to develop location-specific cultivars.

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