scholarly journals Partitioning variation in measurements of beef carcass traits using ultrasound1

2020 ◽  
Vol 4 (3) ◽  
Author(s):  
Bradie M Schmidt ◽  
Michael G Gonda ◽  
Michael D MacNeil

Abstract Ultrasound technology provides cattle breeders with a quick, noninvasive, and inexpensive way to measure carcass data on live animals. Ultrasound data are used as indicator traits in cattle genetic evaluations for economically relevant carcass traits. Ultrasound cattle genetic evaluations assume homogeneous additive genetic and residual variance. Thus, the objective was to partition phenotypic variance in ultrasound carcass measurements into components for additive genetic effects, technicians, contemporary groups within technicians, and residual and to examine the homogeneity of these variances among image interpretation laboratories. Records of longissimus muscle area (LMA), percentage of intramuscular fat (IMF), and subcutaneous fat depth (SFD), measured using ultrasound, were provided by the American Angus Association (n = 65,967), American Hereford Association (n = 43,182), and American Simmental Association (n = 48,298). The data also included contemporary group, technician, imaging lab, and a three-generation pedigree for each animal. Variance components for ultrasound carcass measurements were first estimated with univariate animal models for each breed and imaging laboratory using derivative-free restricted maximum likelihood. Then, treating data from each imaging laboratory as separate traits, genetic correlations between laboratories for LMA, percentage of IMF, and subcutaneous fat were estimated with trivariate animal models. The technician explained 12–27%, 5–23%, and 4–26% of the variance for IMF, SFD, and LMA, respectively, across all three breeds. Variance due to technician was often greater than variance due to additive genetic effects but almost always less than that explained by the contemporary group. Within breeds, estimates of additive genetic variance for LMA, SFD, and IMF differed (range divided by mean) among laboratories by 4.5%, 21.5%, and 39.4 % (Angus); 31.6%, 15.0%, and 49.1% (Hereford); and 19.9%, 46.6%, and 55.3% (Simmental), respectively. Likewise, estimates of residual variance for LMA, SFD, and IMF differed among laboratories by 43.4%, 22.9%, and 43.3% (Angus); 24.9%, 15.2%, and 79.2% (Hereford); and 26.4%, 32.5%, and 46.2% (Simmental), respectively. Genetic correlations between labs across breeds ranged from 0.79 to 0.95 for IMF, 0.26 to 0.94 for SFD, and 0.78 to 0.98 for LMA. The impact of the observed heterogeneity of variance between labs on genetic evaluation requires further study.

2020 ◽  
Vol 98 (Supplement_3) ◽  
pp. 26-27
Author(s):  
Bradie M Schmidt ◽  
Michael MacNeil ◽  
Michael Gonda

Abstract Carcass data that is collected using ultrasound contributes to national genetic evaluation of beef cattle. Cattle are scanned by many technicians and the resulting images are processed by three laboratories providing data to breed associations. The Ultrasound Guidelines Council certifies technicians and laboratories as being proficient. However, there has been no comprehensive evaluation of non-genetic sources of variation that affect the data. The objective of this study was to partition the variance of ultrasound carcass measurements to animal genetic effects, ultrasound scanning technician and image interpretation laboratory. Ultrasound carcass data for longissimus muscle area, percent intramuscular fat, and subcutaneous fat depth were provided by the American Angus Association (n=65,971), American Hereford Association (n=43,380), and American Simmental Association (n=48,298). For each breed variance components were estimated for additive genetic effects of each animal, technician, contemporary group nested within technician and residual. Genetic correlations were estimated treating measurements from the different interpretation laboratories as separate traits. Across all three breeds, additive genetic effects explained between 15 and 30%, 11 and 25%, and 6 and 13% of the phenotypic variance for IMF, SQF, and LMA, respectively. Similarly, technician explained 12-27%, 4-28%, and 4-26% of the phenotypic variance; contemporary groups within technician accounted for 25-45%, 20-54%, and 43-73% of phenotypic variance. Among the image interpretation laboratories, the ratio of greatest to least residual variance was 3.96, 1.62, and 1.50 for IMF, SQF, and LMA, respectively. Genetic correlations between labs ranged from 0.79 to 0.95 for IMF, 0.64 to 0.94 for SQF and 0.78 to 0.98 for LMA. These results suggest the potential for the residual variances to be heterogeneous, particularly for IMF, depending on the image interpretation laboratory.


2001 ◽  
Vol 72 (3) ◽  
pp. 441-447 ◽  
Author(s):  
R. Grochowska ◽  
A. Lundén ◽  
L. Zwierzchowski ◽  
M. Snochowski ◽  
J. Oprządek

AbstractThe contribution of the leucine/valine substitution at amino acid position 127 in the bovine growth hormone (GH) protein to variation in carcass traits was studied. The data included 109 Polish Friesian bulls slaughtered at 15 months of age. The traits measured were carcass gain, weights of meat, bones, intermuscular and subcutaneous fat in the carcass and meat, bones and fat in valuable cuts (fore and best ribs, sirloin, round of beef and shoulder). The bulls’ GH genotype was determined using the PCR-RFLP technique. The frequencies of leucine (Leu) and valine (Val) alleles were 0·64 and 0·36, respectively. The GH concentration was determined in serial blood plasma samples collected every 15 min starting from 15 min before to 135 min after intravenous administration of 0·15 µg thyrotropin releasing hormone (TRH) per kg live weight. Response GH variables were: baseline (the mean of samples collected at –15 and 0 min), peak (the sample taken at 15 min post injection of TRH) and disappearance rate (calculated as peak minus the sample at 60 min, divided by time interval 45 min). Mixed animal models were used for the statistical analysis. Differences were found between the Leu/Leu and the Val/Val genotypes for carcass gain and weight of meat in the carcass (P ≤ 0·05). Moreover, differences in the size of the GH peak between the two homozygotes approached significance (P ≤ 0·10). The effect of GH genotype accounted for a moderate part of the phenotypic variance in the carcass traits, corresponding to a reduction in the residual variance of ≤ 5·25% when included in the model, whereas the corresponding value for the effect of GH genotype on the variation in GH release was lower, ≤ 1·77%. In conclusion, the Leu/Val polymorphism seems to be associated with carcass traits in dairy bulls, although the effect was relatively small when compared with the effects of season and background genome.


2009 ◽  
Vol 38 (8) ◽  
pp. 1488-1493 ◽  
Author(s):  
Sarah Laguna Meirelles ◽  
Ana Carolina Espasandin ◽  
Maira Mattar ◽  
Sandra Aidar de Queiroz

The objective of this study was to estimate the heritability of probability of early pregnancy (PEP) and scrotal circumference (SC) and the genetic correlation between these traits in Nellore cattle. PEP records from 11,696 Nellore females born between 1983 and 2001 were analyzed. PEP was assumed to be one for females that effectively bred in the herd (19.84%) and zero for those discarded before first calving (80.16%). The model used to study PEP included the effects of contemporary group, age of dam at calving and heifer weaning age, direct additive genetic effects, and residual effects. For SC, 9335 records were analyzed considering the effect of contemporary group, direct additive genetic effects and residual effects. Covariance components were estimated by Gibbs sampling applied to a two-trait sire model, using a threshold model for PEP and a linear model for SC. Estimated mean heritability was 0.47 ± 0.05 for PEP and 0.27 ± 0.03 for SC, and the genetic correlation between traits was 0.12 ± 0.20. These results indicated the existence of additive genetic variation for PEP and this trait should therefore respond to selection. The estimated genetic correlation between PEP and SC indicated a low, but favorable, association. Thus, SC might be used together with PEP in genetic evaluations of sexual precocity. This procedure would increase the accuracy of predicting expected progeny differences for PEP.


Author(s):  
C J Duff ◽  
J H J van der Werf ◽  
P F Parnell ◽  
S A Clark

Abstract The improvement of carcass traits is an important breeding objective in beef cattle breeding programs. The most common way of selecting for improvement in carcass traits is via indirect selection using ultrasound scanning of selection candidates which are submitted to genetic evaluation programs. Two systems used to analyse ultrasound images to predict carcass traits are the Pie Medical Esaote Aquila (PIE) and Central Ultrasound Processing (CUP). This study compared the ability of the two systems to predict carcass traits for genetic evaluation in Australian Angus cattle. Genetic and phenotypic parameters were estimated using data from 1648 Angus steers which were ultrasound scanned twice with both systems, first at feedlot entry and then following 100 days in the feedlot. The traits interpreted from ultrasound scanning included eye muscle area (EMA), rib fat (RIB) rump fat (RUMP) and intramuscular fat (IMF). Abattoir carcass data were collected on all steers following the full feedlot feeding period of 285 days. For all ultrasound scan traits, CUP resulted in higher phenotypic and genetic variances compared to the PIE. For IMF, CUP had higher heritability at feedlot intake (0.51 for CUP compared to 0.37 for PIE) and after 100 days feeding (0.54 for CUP compared to 0.45 PIE). CUP predicted IMF also tended to have stronger correlations with the breeding objective traits of carcass IMF marbling traits, both genetically (ranging from 0.59 to 0.75 for CUP compared to 0.45 to 0.63 for PIE) and phenotypically (ranging from 0.27 to 0.43 for CUP compared to 0.19 to 0.28 for PIE). Ultrasound scan EMA were the only group of traits in which the heritabilities were higher for PIE (0.52 for PIE compared to 0.40 for CUP at feedlot intake and 0.46 for PIE compared to 0.43 for CUP at 100 days of feeding), however with similar relationships to the breeding objective carcass EMA observed. For subcutaneous fat traits of ultrasound RIB and RUMP, the heritabilites and genetic correlations to the related carcass traits were similar, with the exception being the higher heritability observed for CUP predicted RUMP at feedlot intake at 0.52 compared to 0.38 for PIE. The results from this study indicates that the CUP system, compared to PIE, provides an advantage for genetic evaluation of carcass traits in Angus cattle, particularly for the IMF and associated marbling traits.


2004 ◽  
Vol 84 (4) ◽  
pp. 589-597 ◽  
Author(s):  
D. H. Crews ◽  
Jr., M. Lowerison ◽  
N. Caron ◽  
R. A. Kemp

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


2000 ◽  
Vol 71 (1) ◽  
pp. 59-64 ◽  
Author(s):  
T. Oikawa ◽  
T. Sanehira ◽  
K. Sato ◽  
Y. Mizoguchi ◽  
H. Yamamoto ◽  
...  

AbstractRestricted maximum likelihood analyses fitting an animal model were conducted to estimate genetic parameters with a pooled-data set of performance tests (growth traits and food intake) on 661 bulls and progeny tests (growth traits and carcass traits) on 535 steers. Traits studied included concentrate intake (CONC), roughage intake (ROU), TDN conversion (TCNV), TDN intake (TINT) of bulls; rib eye area (REA), marbling score (MARB), dressing proportion (DRES) and subcutaneous fat depth (SCF) of steers. Body weight at start (BWS), body weight at finish (BWF) and average daily gain (ADG) of all animals were measured. Estimated heritabilities were 0·18 (CONC), 0·71 (ROU), 0·11 (TCNV) and 0·36 (TINT); 0·02 (REA), 0·49 (MARB), 0·15 (DRES), 0·15 (SCF), and from 0·20 to 0·38 for growth traits. Genetic correlations of ROU were different from those of CONC, probably due to inconsistent restrictions on concentrate intake; those of TINT with the weights, ADG and SCF were high. MARB showed positive genetic correlations with growth traits and low correlations with TINT and SCF. High potentiality for improvement of marbling score was suggested.


1998 ◽  
Vol 66 (2) ◽  
pp. 349-355 ◽  
Author(s):  
M. Diop ◽  
L. D. Van Vleck

AbstractEstimates of (co)variance components and genetic parameters were obtained for birth (no. = 3909), weaning (no. = 3425), yearling (no. = 2763), and final weight (no. = 2142) for Gobra cattle at the Centre de Recherches Zootechniques de Dahra (Senegal), using single trait animal models. Data were analysed by restricted maximum likelihood. Four different animal models were fitted for each trait. Model 1 considered the animal as the only random effect. Model 2 included in addition to the additive direct effect of the animal, the environmental effect due to the dam. Model 3 added the maternal additive genetic effects and allowed a covariance between the direct and maternal genetic effects. Model 4 fitted both maternal genetic and permanent environmental effects. Inclusion of both types of maternal effects (genetic and environmental) provided a better fit for birth and weaning weights than models with one maternal effect only. For yearling and final weights, the improvement was not significant. Important maternal effects werefound for all traits. Estimates of direct heritabilities were substantially higher when maternal effects were ignored. Estimates of direct and maternal heritabilities with model 4 were 0·07 (s.e. 0·03) and 0·04 (s.e. 0·02), 0·20 (s.e. 0·05) and 0·21 (s.e. 0.05), 0·24 (s.e. 0·07) and 0·21 (s.e. 0·06), and 0·14 (s.e. 0·06) and 0.16 (s.e. 0·06) for birth, weaning, yearling and final weights, respectively. Correlations between direct and maternal genetic effects were negative for all traits, and large for weaning and yearling weights with estimates of -0·61 (s.e. 0·33) and -0·50 (s.e. 0·31), respectively. There was a significant positive linear phenotypic trend for weaning and yearling weights. Linear trends for additive direct and maternal breeding values were not significant for any trait except maternal breeding value for yearling weight.


2020 ◽  
Vol 52 (1) ◽  
Author(s):  
William Herrera-Cáceres ◽  
Juan Pablo Sánchez

Abstract Background Traits recorded on animals that are raised in groups can be analysed with the social effects animal model (SAM). For multiple traits, this model specifies the genetic correlation structure more completely than the animal model (AM). Our hypothesis was that by using the SAM for genetic evaluation of average daily gain (ADG) and backfat thickness (BF), a high rate of improvement in feed conversion ratio (FCR) might be achieved, since unfavourable genetic correlations between ADG and BF reported in a Duroc pig line could be partially avoided. We estimated genetic and non-genetic correlations between BF, ADG and FCR on 1144 pigs using Bayesian methods considering the SAM; and responses to selection indexes that combine estimates of indirect (IGE) and direct (DGE) genetic effects for ADG and BF by stochastic simulation. Results Estimates of the ratio of the variance of DGE to the phenotypic variance were 0.31, 0.39 and 0.25 and those of the total genetic variance to the phenotypic variance were 0.63, 0.74 and 0.93 for ADG, BF and FCR, respectively. In spite of this, when the SAM was used to generate data and for the genetic evaluations, the average economic response was worse than that obtained when BV predictions from the AM were considered. The achieved economic response was due to a direct reduction in BF and not to an improvement in FCR. Conclusions Our results show that although social genetic effects play an important role in the traits studied, their proper consideration in pig breeding programs to improve FCR indirectly is still difficult. The correlations between IGE and DGE that could help to overcome the unfavourable genetic correlations between DGE did not reach sufficiently high magnitudes; also, the genetic parameters estimates from the SAM have large errors. These two factors penalize the average response under the SAM compared to the AM.


2003 ◽  
Vol 54 (2) ◽  
pp. 119 ◽  
Author(s):  
A. Reverter ◽  
D. J. Johnston ◽  
D. Perry ◽  
M. E. Goddard ◽  
H. M. Burrow

A total of 11 abattoir carcass measures were recorded on 7854 carcasses in temperate (TEMP) and tropically adapted (TROP) beef breeds. Breeds for TEMP included Angus, Hereford, Murray Grey, and Shorthorn; Brahman, Belmont Red, and Santa Gertrudis accounted for TROP breeds. Measurements included carcass weight (CWT), retail beef yield percentage (RBY), intramuscular fat percentage (IMF), subcutaneous fat depth at the P8 site (P8) and at 12/13th rib (RIB), eye muscle length by width (ELW), deep butt temperature (DBTEMP), fat colour score (FATC), meat colour score (MEATC), marbling score (MARB), and carcass muscle score (MUSC). Animals were finished to 3 different market weight endpoints, either on pasture or in a feedlot, and in different geographic regions for the TROP breeds. Both the phenotypic and genetic expressions of the traits were estimated at each level of market weight endpoint and finishing regime. Heritabilities (h2), and genetic (rg) and phenotypic (rp) correlations between traits were estimated for TEMP and TROP separately. The design effects of market weight endpoint and finishing regimes were the most important sources of variation for continuously measured traits. Main effects for the scored traits were finishing regime for FATC and MEATC and market weight endpoint for MARB and MUSC. Feedlot finished cattle had the whitest FATC and the lightest MEATC. For TEMP, estimates of h2 for CWT, RBY, IMF, P8, RIB, ELW, DBTEMP, FATC, MEATC, MARB, and MUSC were 0.39, 0.57, 0.38, 0.36, 0.27, 0.30, 0.10, 0.05, 0.11, 0.17, and 0.14, respectively. In comparison, h2 for the same order of traits for TROP were 0.36, 0.50, 0.39, 0.30, 0.41, 0.32, 0.04, 0.09, 0.11, 0.25, and 0.11. The direction and magnitude of rg between traits were similar for TEMP and TROP, particularly between CWT, RBY, IMF, P8, and RIB. Genetic correlations of RBY were moderate and negative with all measures of fatness, including IMF (–0.38 TEMP and –0.43 TROP). Positive rg existed between all measures of fatness, with MARB and IMF close to unity. Negative rg was estimated between CWT and all fat measurements. Also negative were the rg and rp estimates between CWT and MEATC. For all traits in both TEMP and TROP, domestic weight carcasses exhibited lower additive variance than export market carcasses. However, genetic correlations between traits across market weight endpoints were positive and close to unity, with the exception of RBY for TROP. For TEMP breeds, genetic correlations between finishing regimes were close to unity. However, possible genotype by environment interactions were found for TROP for P8, MEATC, and MARB between finishing in different geographic regions, and between feedlot and pasture finished animals for RBY and MEATC. Genetic improvement of carcass traits is a possibility given the moderate heritabilities, moderate to strong genetic correlations, and little evidence of genotype by environment interactions.


Animals ◽  
2021 ◽  
Vol 11 (2) ◽  
pp. 481
Author(s):  
Valentina Bonfatti ◽  
Roberta Rostellato ◽  
Paolo Carnier

Neglecting dominance effects in genetic evaluations may overestimate the predicted genetic response achievable by a breeding program. Additive and dominance genetic effects were estimated by pedigree-based models for growth, carcass, fresh ham and dry-cured ham seasoning traits in 13,295 crossbred heavy pigs. Variance components estimated by models including litter effects, dominance effects, or both, were compared. Across traits, dominance variance contributed up to 26% of the phenotypic variance and was, on average, 22% of the additive genetic variance. The inclusion of litter, dominance, or both these effects in models reduced the estimated heritability by 9% on average. Confounding was observed among litter, additive genetic and dominance effects. Model fitting improved for models including either the litter or dominance effects, but it did not benefit from the inclusion of both. For 15 traits, model fitting slightly improved when dominance effects were included in place of litter effects, but no effects on animal ranking and accuracy of breeding values were detected. Accounting for litter effects in the models for genetic evaluations would be sufficient to prevent the overestimation of the genetic variance while ensuring computational efficiency.


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